diff --git a/public/blca_msk_2024/case_lists/cases_all.txt b/public/blca_msk_2024/case_lists/cases_all.txt new file mode 100644 index 000000000..95c602583 --- /dev/null +++ b/public/blca_msk_2024/case_lists/cases_all.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: blca_msk_2024 +stable_id: blca_msk_2024_all +case_list_name: All samples +case_list_description: All samples (184 samples) +case_list_category: all_cases_in_study +case_list_ids: s_C_CTF5YF_P001_d s_C_2VU6CW_P001_d s_C_D719AD_P001_d s_C_M9LRUU_P001_d s_C_AC46KC_P001_d s_C_H6KW86_P001_d s_C_RA99UW_P001_d s_C_ND3PF6_P001_d s_C_VV3UK5_P001_d s_C_679EAR_P001_d s_C_MP6REX_P001_d s_C_ADTAL5_P001_d s_C_003HA8_P001_d s_C_XHTVXK_P001_d s_C_CPMWYP_P001_d s_C_FNM4WR_P001_d s_C_16WVCF_P001_d s_C_VJXJFU_P001_d s_C_1R1WNJ_P001_d s_C_UDRKF3_P001_d s_C_XKCKC4_P001_d s_C_74P9P5_P001_d s_C_N9HPT3_P001_d s_C_3F494V_P001_d s_C_FXE2UD_P001_d s_C_38PJEF_P001_d s_C_F2M8WF_P001_d s_C_PM5TJ7_P001_d s_C_6D84WP_P001_d s_C_JLJYPK_P001_d s_C_207N1F_P001_d s_C_K317TX_P001_d s_C_L6W2CJ_P001_d s_C_H4W1K4_P001_d s_C_463ART_P001_d s_C_87E3EJ_P001_d s_C_43DJ06_P001_d s_C_PDDMRT_P001_d s_C_AHNE99_P001_d s_C_NVUUKL_P001_d s_C_MA94C5_P001_d s_C_VYYFDM_P001_d s_C_D86FFD_P001_d s_C_2M7T23_P001_d s_C_1X92N8_P001_d s_C_KERR2T_P001_d s_C_U55NDX_P001_d s_C_89C4M2_P001_d s_C_PD7WJ5_P001_d s_C_J8LXYH_P001_d s_C_7EJL8A_P001_d s_C_AML0FT_P001_d s_C_VN5R9F_P001_d s_C_560HVF_P001_d s_C_0TCWAD_P001_d s_C_7DC7TE_P001_d s_C_WWVAUA_P001_d s_C_37NVKX_P001_d s_C_J6VM3L_P001_d s_C_CUNWLL_P001_d s_C_2NNWRW_P001_d s_C_4E8PUE_P001_d s_C_R46WLK_P001_d s_C_3J08Y0_P001_d s_C_K2N1TF_P001_d s_C_LE0374_P001_d s_C_X6CKRC_P001_d s_C_TUPDLD_P001_d s_C_9KL29X_P001_d s_C_WWX7F3_P001_d s_C_232307_P001_d s_C_CLWNJ3_P001_d s_C_EVTW87_P001_d s_C_K8EJXJ_P001_d s_C_W7RKP6_P001_d s_C_3DDFJ1_P001_d s_C_H2TY6P_P001_d s_C_FFDRA3_P001_d s_C_63A3CN_P001_d s_C_EC82A3_P001_d s_C_WETKKF_P001_d s_C_PN4P3L_P001_d s_C_FFAVJN_P001_d s_C_F666AJ_P001_d s_C_2LFVFJ_P001_d s_C_YW97WL_P001_d s_C_JNR9X3_P001_d s_C_UT983P_P001_d s_C_54LU1W_P001_d s_C_0XTAKJ_P001_d s_C_78NDH0_P001_d s_C_EX51R7_P001_d s_C_5CD5F4_P001_d s_C_VK8J4L_P001_d s_C_ECY328_P001_d s_C_R02LP8_P001_d s_C_73ALEN_P001_d s_C_EKXV7Y_P001_d s_C_E2UHXJ_P001_d s_C_YDVXUW_P001_d s_C_6J9XA7_P001_d s_C_A53JAX_P001_d s_C_V7KV1F_P001_d s_C_0KDD84_P001_d s_C_UX8338_P001_d s_C_JC2AAV_P001_d s_C_43CW84_P001_d s_C_NKC9KT_P001_d s_C_YVFD2D_P001_d s_C_YD1V7A_P001_d s_C_6HDFCW_P001_d s_C_7985Y0_P001_d s_C_8P85VJ_P001_d s_C_A83PUJ_P001_d s_C_WKATAH_P001_d s_C_FCV3TX_P001_d s_C_0TH9KN_P001_d s_C_W5LDW5_P001_d s_C_WD75HA_P001_d s_C_UWM6VE_P001_d s_C_AKF3DV_P001_d s_C_HD11U7_P001_d s_C_EFW6MX_P001_d s_C_K77HCW_P001_d s_C_JJ288E_P001_d s_C_6XRKTE_P001_d s_C_XEE6T3_P001_d s_C_DY80YJ_P001_d s_C_EWURPF_P001_d s_C_HVF41F_P001_d s_C_C0R4XV_P001_d s_C_7C3FH7_P001_d s_C_086CTC_P001_d s_C_85EFWK_P001_d s_C_UJD97R_P001_d s_C_E5959J_P001_d s_C_NR69F3_P001_d s_C_T0F2EP_P001_d s_C_EDRAFY_P001_d s_C_7M996U_P001_d s_C_UR3KPW_P001_d s_C_JLMFY4_P001_d s_C_452P26_P001_d s_C_9F3MTV_P001_d s_C_R0UH0K_P001_d s_C_DV4NE2_P001_d s_C_433LEN_P001_d s_C_XCJM63_P001_d s_C_UC4HNA_P001_d s_C_4CXPCD_P001_d s_C_30E67P_P001_d s_C_CKPXK0_P001_d s_C_VW7737_P001_d s_C_U1R4KF_P001_d s_C_RHFHTD_P001_d s_C_V2M1XF_P001_d s_C_T495A5_P001_d s_C_40DXFP_P001_d s_C_5RMT0X_P001_d s_C_XNLAPP_P001_d s_C_WNJMJL_P001_d s_C_WK4PUE_P001_d s_C_DJY8FJ_P001_d s_C_K6PU9E_P001_d s_C_T0H067_P001_d s_C_EMA9TY_P001_d s_C_RRRVF4_P001_d s_C_N677E4_P001_d s_C_C15KVL_P001_d s_C_T246L8_P001_d s_C_CW7N4C_P001_d s_C_35A8RK_P001_d s_C_YEPU8K_P001_d s_C_XEAY67_P001_d s_C_AN6LCV_P001_d s_C_CWJ45P_P001_d s_C_X2RNX1_P001_d s_C_323C2E_P001_d s_C_KHKDUM_P001_d s_C_M2L33T_P001_d s_C_6MA9R0_P001_d s_C_15J678_P001_d s_C_RP1DED_P001_d s_C_LY7NRX_P001_d diff --git a/public/blca_msk_2024/case_lists/cases_cna.txt b/public/blca_msk_2024/case_lists/cases_cna.txt new file mode 100644 index 000000000..0cb90d03b --- /dev/null +++ b/public/blca_msk_2024/case_lists/cases_cna.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: blca_msk_2024 +stable_id: blca_msk_2024_cna +case_list_name: Samples with CNA data +case_list_description: Samples with CNA data (184 samples) +case_list_category: all_cases_with_cna_data +case_list_ids: s_C_CTF5YF_P001_d s_C_2VU6CW_P001_d s_C_D719AD_P001_d s_C_M9LRUU_P001_d s_C_AC46KC_P001_d s_C_H6KW86_P001_d s_C_RA99UW_P001_d s_C_ND3PF6_P001_d s_C_VV3UK5_P001_d s_C_679EAR_P001_d s_C_MP6REX_P001_d s_C_ADTAL5_P001_d s_C_003HA8_P001_d s_C_XHTVXK_P001_d s_C_CPMWYP_P001_d s_C_FNM4WR_P001_d s_C_16WVCF_P001_d s_C_VJXJFU_P001_d s_C_1R1WNJ_P001_d s_C_UDRKF3_P001_d s_C_XKCKC4_P001_d s_C_74P9P5_P001_d s_C_N9HPT3_P001_d s_C_3F494V_P001_d s_C_FXE2UD_P001_d s_C_38PJEF_P001_d s_C_F2M8WF_P001_d s_C_PM5TJ7_P001_d s_C_6D84WP_P001_d s_C_JLJYPK_P001_d s_C_207N1F_P001_d s_C_K317TX_P001_d s_C_L6W2CJ_P001_d s_C_H4W1K4_P001_d s_C_463ART_P001_d s_C_87E3EJ_P001_d s_C_43DJ06_P001_d s_C_PDDMRT_P001_d s_C_AHNE99_P001_d s_C_NVUUKL_P001_d s_C_MA94C5_P001_d s_C_VYYFDM_P001_d s_C_D86FFD_P001_d s_C_2M7T23_P001_d s_C_1X92N8_P001_d s_C_KERR2T_P001_d s_C_U55NDX_P001_d s_C_89C4M2_P001_d s_C_PD7WJ5_P001_d s_C_J8LXYH_P001_d s_C_7EJL8A_P001_d s_C_AML0FT_P001_d s_C_VN5R9F_P001_d s_C_560HVF_P001_d s_C_0TCWAD_P001_d s_C_7DC7TE_P001_d s_C_WWVAUA_P001_d s_C_37NVKX_P001_d s_C_J6VM3L_P001_d s_C_CUNWLL_P001_d s_C_2NNWRW_P001_d s_C_4E8PUE_P001_d s_C_R46WLK_P001_d s_C_3J08Y0_P001_d s_C_K2N1TF_P001_d s_C_LE0374_P001_d s_C_X6CKRC_P001_d s_C_TUPDLD_P001_d s_C_9KL29X_P001_d s_C_WWX7F3_P001_d s_C_232307_P001_d s_C_CLWNJ3_P001_d s_C_EVTW87_P001_d s_C_K8EJXJ_P001_d s_C_W7RKP6_P001_d s_C_3DDFJ1_P001_d s_C_H2TY6P_P001_d s_C_FFDRA3_P001_d s_C_63A3CN_P001_d s_C_EC82A3_P001_d s_C_WETKKF_P001_d s_C_PN4P3L_P001_d s_C_FFAVJN_P001_d s_C_F666AJ_P001_d s_C_2LFVFJ_P001_d s_C_YW97WL_P001_d s_C_JNR9X3_P001_d s_C_UT983P_P001_d s_C_54LU1W_P001_d s_C_0XTAKJ_P001_d s_C_78NDH0_P001_d s_C_EX51R7_P001_d s_C_5CD5F4_P001_d s_C_VK8J4L_P001_d s_C_ECY328_P001_d s_C_R02LP8_P001_d s_C_73ALEN_P001_d s_C_EKXV7Y_P001_d s_C_E2UHXJ_P001_d s_C_YDVXUW_P001_d s_C_6J9XA7_P001_d s_C_A53JAX_P001_d s_C_V7KV1F_P001_d s_C_0KDD84_P001_d s_C_UX8338_P001_d s_C_JC2AAV_P001_d s_C_43CW84_P001_d s_C_NKC9KT_P001_d s_C_YVFD2D_P001_d s_C_YD1V7A_P001_d s_C_6HDFCW_P001_d s_C_7985Y0_P001_d s_C_8P85VJ_P001_d s_C_A83PUJ_P001_d s_C_WKATAH_P001_d s_C_FCV3TX_P001_d s_C_0TH9KN_P001_d s_C_W5LDW5_P001_d s_C_WD75HA_P001_d s_C_UWM6VE_P001_d s_C_AKF3DV_P001_d s_C_HD11U7_P001_d s_C_EFW6MX_P001_d s_C_K77HCW_P001_d s_C_JJ288E_P001_d s_C_6XRKTE_P001_d s_C_XEE6T3_P001_d s_C_DY80YJ_P001_d s_C_EWURPF_P001_d s_C_HVF41F_P001_d s_C_C0R4XV_P001_d s_C_7C3FH7_P001_d s_C_086CTC_P001_d s_C_85EFWK_P001_d s_C_UJD97R_P001_d s_C_E5959J_P001_d s_C_NR69F3_P001_d s_C_T0F2EP_P001_d s_C_EDRAFY_P001_d s_C_7M996U_P001_d s_C_UR3KPW_P001_d s_C_JLMFY4_P001_d s_C_452P26_P001_d s_C_9F3MTV_P001_d s_C_R0UH0K_P001_d s_C_DV4NE2_P001_d s_C_433LEN_P001_d s_C_XCJM63_P001_d s_C_UC4HNA_P001_d s_C_4CXPCD_P001_d s_C_30E67P_P001_d s_C_CKPXK0_P001_d s_C_VW7737_P001_d s_C_U1R4KF_P001_d s_C_RHFHTD_P001_d s_C_V2M1XF_P001_d s_C_T495A5_P001_d s_C_40DXFP_P001_d s_C_5RMT0X_P001_d s_C_XNLAPP_P001_d s_C_WNJMJL_P001_d s_C_WK4PUE_P001_d s_C_DJY8FJ_P001_d s_C_K6PU9E_P001_d s_C_T0H067_P001_d s_C_EMA9TY_P001_d s_C_RRRVF4_P001_d s_C_N677E4_P001_d s_C_C15KVL_P001_d s_C_T246L8_P001_d s_C_CW7N4C_P001_d s_C_35A8RK_P001_d s_C_YEPU8K_P001_d s_C_XEAY67_P001_d s_C_AN6LCV_P001_d s_C_CWJ45P_P001_d s_C_X2RNX1_P001_d s_C_323C2E_P001_d s_C_KHKDUM_P001_d s_C_M2L33T_P001_d s_C_6MA9R0_P001_d s_C_15J678_P001_d s_C_RP1DED_P001_d s_C_LY7NRX_P001_d diff --git a/public/blca_msk_2024/case_lists/cases_cnaseq.txt b/public/blca_msk_2024/case_lists/cases_cnaseq.txt new file mode 100644 index 000000000..eafef5d68 --- /dev/null +++ b/public/blca_msk_2024/case_lists/cases_cnaseq.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: blca_msk_2024 +stable_id: blca_msk_2024_cnaseq +case_list_name: Samples with mutation and CNA data +case_list_description: Samples with mutation and CNA data (184 samples) +case_list_category: all_cases_with_mutation_and_cna_data +case_list_ids: s_C_CTF5YF_P001_d s_C_D719AD_P001_d s_C_2VU6CW_P001_d s_C_H6KW86_P001_d s_C_AC46KC_P001_d s_C_M9LRUU_P001_d s_C_RA99UW_P001_d s_C_ND3PF6_P001_d s_C_VV3UK5_P001_d s_C_679EAR_P001_d s_C_MP6REX_P001_d s_C_ADTAL5_P001_d s_C_FNM4WR_P001_d s_C_003HA8_P001_d s_C_CPMWYP_P001_d s_C_XHTVXK_P001_d s_C_16WVCF_P001_d s_C_VJXJFU_P001_d s_C_1R1WNJ_P001_d s_C_UDRKF3_P001_d s_C_XKCKC4_P001_d s_C_74P9P5_P001_d s_C_N9HPT3_P001_d s_C_3F494V_P001_d s_C_F2M8WF_P001_d s_C_38PJEF_P001_d s_C_FXE2UD_P001_d s_C_PM5TJ7_P001_d s_C_6D84WP_P001_d s_C_JLJYPK_P001_d s_C_207N1F_P001_d s_C_K317TX_P001_d s_C_L6W2CJ_P001_d s_C_H4W1K4_P001_d s_C_463ART_P001_d s_C_87E3EJ_P001_d s_C_43DJ06_P001_d s_C_PDDMRT_P001_d s_C_AHNE99_P001_d s_C_MA94C5_P001_d s_C_NVUUKL_P001_d s_C_VYYFDM_P001_d s_C_2M7T23_P001_d s_C_D86FFD_P001_d s_C_1X92N8_P001_d s_C_U55NDX_P001_d s_C_KERR2T_P001_d s_C_89C4M2_P001_d s_C_PD7WJ5_P001_d s_C_J8LXYH_P001_d s_C_7EJL8A_P001_d s_C_AML0FT_P001_d s_C_VN5R9F_P001_d s_C_560HVF_P001_d s_C_0TCWAD_P001_d s_C_7DC7TE_P001_d s_C_WWVAUA_P001_d s_C_37NVKX_P001_d s_C_J6VM3L_P001_d s_C_CUNWLL_P001_d s_C_2NNWRW_P001_d s_C_4E8PUE_P001_d s_C_R46WLK_P001_d s_C_3J08Y0_P001_d s_C_K2N1TF_P001_d s_C_LE0374_P001_d s_C_X6CKRC_P001_d s_C_TUPDLD_P001_d s_C_9KL29X_P001_d s_C_WWX7F3_P001_d s_C_232307_P001_d s_C_CLWNJ3_P001_d s_C_K8EJXJ_P001_d s_C_EVTW87_P001_d s_C_W7RKP6_P001_d s_C_3DDFJ1_P001_d s_C_H2TY6P_P001_d s_C_FFDRA3_P001_d s_C_63A3CN_P001_d s_C_EC82A3_P001_d s_C_WETKKF_P001_d s_C_PN4P3L_P001_d s_C_FFAVJN_P001_d s_C_F666AJ_P001_d s_C_2LFVFJ_P001_d s_C_YW97WL_P001_d s_C_JNR9X3_P001_d s_C_UT983P_P001_d s_C_0XTAKJ_P001_d s_C_54LU1W_P001_d s_C_78NDH0_P001_d s_C_EX51R7_P001_d s_C_5CD5F4_P001_d s_C_VK8J4L_P001_d s_C_ECY328_P001_d s_C_R02LP8_P001_d s_C_73ALEN_P001_d s_C_EKXV7Y_P001_d s_C_E2UHXJ_P001_d s_C_YDVXUW_P001_d s_C_6J9XA7_P001_d s_C_A53JAX_P001_d s_C_V7KV1F_P001_d s_C_0KDD84_P001_d s_C_UX8338_P001_d s_C_JC2AAV_P001_d s_C_43CW84_P001_d s_C_6HDFCW_P001_d s_C_YVFD2D_P001_d s_C_8P85VJ_P001_d s_C_A83PUJ_P001_d s_C_7985Y0_P001_d s_C_NKC9KT_P001_d s_C_YD1V7A_P001_d s_C_WKATAH_P001_d s_C_HD11U7_P001_d s_C_WD75HA_P001_d s_C_W5LDW5_P001_d s_C_0TH9KN_P001_d s_C_UWM6VE_P001_d s_C_AKF3DV_P001_d s_C_FCV3TX_P001_d s_C_6XRKTE_P001_d s_C_EFW6MX_P001_d s_C_JJ288E_P001_d s_C_K77HCW_P001_d s_C_XEE6T3_P001_d s_C_DY80YJ_P001_d s_C_EWURPF_P001_d s_C_HVF41F_P001_d s_C_C0R4XV_P001_d s_C_7C3FH7_P001_d s_C_086CTC_P001_d s_C_UJD97R_P001_d s_C_85EFWK_P001_d s_C_E5959J_P001_d s_C_NR69F3_P001_d s_C_T0F2EP_P001_d s_C_EDRAFY_P001_d s_C_7M996U_P001_d s_C_JLMFY4_P001_d s_C_UR3KPW_P001_d s_C_452P26_P001_d s_C_9F3MTV_P001_d s_C_R0UH0K_P001_d s_C_DV4NE2_P001_d s_C_UC4HNA_P001_d s_C_XCJM63_P001_d s_C_433LEN_P001_d s_C_4CXPCD_P001_d s_C_30E67P_P001_d s_C_CKPXK0_P001_d s_C_VW7737_P001_d s_C_U1R4KF_P001_d s_C_RHFHTD_P001_d s_C_V2M1XF_P001_d s_C_T495A5_P001_d s_C_40DXFP_P001_d s_C_5RMT0X_P001_d s_C_XNLAPP_P001_d s_C_WNJMJL_P001_d s_C_WK4PUE_P001_d s_C_DJY8FJ_P001_d s_C_K6PU9E_P001_d s_C_T0H067_P001_d s_C_EMA9TY_P001_d s_C_RRRVF4_P001_d s_C_N677E4_P001_d s_C_C15KVL_P001_d s_C_T246L8_P001_d s_C_CW7N4C_P001_d s_C_35A8RK_P001_d s_C_YEPU8K_P001_d s_C_XEAY67_P001_d s_C_AN6LCV_P001_d s_C_CWJ45P_P001_d s_C_X2RNX1_P001_d s_C_323C2E_P001_d s_C_KHKDUM_P001_d s_C_M2L33T_P001_d s_C_6MA9R0_P001_d s_C_15J678_P001_d s_C_RP1DED_P001_d s_C_LY7NRX_P001_d diff --git a/public/blca_msk_2024/case_lists/cases_sequenced.txt b/public/blca_msk_2024/case_lists/cases_sequenced.txt new file mode 100644 index 000000000..f8d41ffad --- /dev/null +++ b/public/blca_msk_2024/case_lists/cases_sequenced.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: blca_msk_2024 +stable_id: blca_msk_2024_sequenced +case_list_name: Samples with mutation data +case_list_description: Samples with mutation data (184 samples) +case_list_category: all_cases_with_mutation_data +case_list_ids: s_C_CTF5YF_P001_d s_C_D719AD_P001_d s_C_2VU6CW_P001_d 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100644 index 000000000..482fafff4 --- /dev/null +++ b/public/blca_msk_2024/meta_clinical_sample.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: blca_msk_2024 +genetic_alteration_type: CLINICAL +datatype: SAMPLE_ATTRIBUTES +data_filename: data_clinical_sample.txt diff --git a/public/blca_msk_2024/meta_cna.txt b/public/blca_msk_2024/meta_cna.txt new file mode 100644 index 000000000..535ee0a64 --- /dev/null +++ b/public/blca_msk_2024/meta_cna.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: blca_msk_2024 +data_filename: data_cna.txt +datatype: DISCRETE +genetic_alteration_type: COPY_NUMBER_ALTERATION +profile_description: Discrete Copy Number Data +profile_name: Discrete Copy Number Data +show_profile_in_analysis_tab: true +stable_id: cna diff --git a/public/blca_msk_2024/meta_cna_hg19_seg.txt b/public/blca_msk_2024/meta_cna_hg19_seg.txt new file mode 100644 index 000000000..c1b85fdcf --- /dev/null +++ b/public/blca_msk_2024/meta_cna_hg19_seg.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: blca_msk_2024 +data_filename: data_cna_hg19.seg +genetic_alteration_type: COPY_NUMBER_ALTERATION +datatype: SEG +show_profile_in_analysis_tab: FALSE +profile_name: Segment data values +description: Somatic CNA data (copy number ratio from tumor samples minus ratio from matched normals) from TCGA. +reference_genome_id: hg19 diff --git a/public/blca_msk_2024/meta_mutations.txt b/public/blca_msk_2024/meta_mutations.txt new file mode 100644 index 000000000..aa97f723b --- /dev/null +++ b/public/blca_msk_2024/meta_mutations.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: blca_msk_2024 +data_filename: data_mutations.txt +datatype: MAF +genetic_alteration_type: MUTATION_EXTENDED +profile_description: Mutation data +profile_name: Mutations +show_profile_in_analysis_tab: true +stable_id: mutations diff --git a/public/blca_msk_2024/meta_study.txt b/public/blca_msk_2024/meta_study.txt new file mode 100644 index 000000000..16d29176d --- /dev/null +++ b/public/blca_msk_2024/meta_study.txt @@ -0,0 +1,7 @@ +cancer_study_identifier: blca_msk_2024 +description: Targeted sequencing of 184 muscle-invasive bladder cancer (MIBC) samples and their matched normals using MSK-IMPACT. +name: Bladder Urothelial Carcinoma (MSK, JCO Precis Oncol 2024) +short_name: Bladder Carcinoma +type_of_cancer: blca +citation: Iyer, Gopa et al. JCO precision oncology 2024 +pmid: 39499893 \ No newline at end of file diff --git a/public/blca_msk_2024/meta_sv.txt b/public/blca_msk_2024/meta_sv.txt new file mode 100644 index 000000000..3906d4ab9 --- /dev/null +++ b/public/blca_msk_2024/meta_sv.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: blca_msk_2024 +genetic_alteration_type: STRUCTURAL_VARIANT +datatype: SV +profile_name: Structural Variants +profile_description: Structural Variants +show_profile_in_analysis_tab: true +data_filename: data_sv.txt +stable_id: structural_variants diff --git a/public/brca_dldccc_2022/case_lists/cases_all.txt b/public/brca_dldccc_2022/case_lists/cases_all.txt new file mode 100644 index 000000000..b1e5bf464 --- /dev/null +++ b/public/brca_dldccc_2022/case_lists/cases_all.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: brca_dldccc_2022 +stable_id: brca_dldccc_2022_all +case_list_name: All samples +case_list_description: All samples (75 samples) +case_list_category: all_cases_in_study +case_list_ids: NTN084_Baseline NTN059_Baseline NTN013_Baseline NTN072_Baseline NTN017_Cycle1Day3 NTN004_Baseline NTN049_Baseline NTN038_Cycle1Day3 NTN009_Baseline NTN056_Baseline NTN076_Baseline NTN039_Baseline NTN029_Cycle1Day3 H36960.014_Baseline NTN044_Baseline NTN016_Baseline NTN011_Baseline NTN022_Cycle1Day3 NTN040_Baseline NTN052_Baseline NTN081_Cycle1Day3 H36960.008_Baseline NTN038_Baseline NTN054_Baseline NTN033_Cycle1Day3 NTN062_Baseline NTN084_Cycle1Day3 NTN050_Cycle1Day3 NTN081_Baseline NTN049_Cycle1Day3 NTN006_Cycle1Day3 NTN007_Cycle1Day3 NTN007_Baseline H36960.002_Baseline NTN051_Baseline NTN012_Cycle1Day3 NTN006_Baseline NTN085_Baseline NTN033_Baseline NTN029_Baseline NTN017_Baseline NTN020_Baseline NTN083_Baseline NTN046_Cycle1Day3 NTN025_Cycle1Day3 NTN050_Baseline NTN058_Baseline NTN063_Baseline H36960.019_Baseline NTN069_Baseline NTN005_Baseline H36960.009_Baseline H36960.018_Baseline NTN012_Baseline NTN057_Baseline NTN021_Baseline NTN079_Baseline H36960.023_Baseline NTN060_Baseline NTN078_Baseline NTN067_Baseline NTN062_Cycle1Day3 NTN031_Baseline NTN075_Baseline NTN085_Cycle1Day3 NTN087_Baseline NTN022_Baseline NTN074_Baseline NTN023_Baseline NTN046_Baseline NTN014_Baseline NTN089_Baseline NTN042_Baseline NTN025_Baseline NTN080_Baseline diff --git a/public/brca_dldccc_2022/case_lists/cases_cna.txt b/public/brca_dldccc_2022/case_lists/cases_cna.txt new file mode 100644 index 000000000..6a36b9e19 --- /dev/null +++ b/public/brca_dldccc_2022/case_lists/cases_cna.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: brca_dldccc_2022 +stable_id: brca_dldccc_2022_cna +case_list_name: Samples with CNA data +case_list_description: Samples with CNA data (75 samples) +case_list_category: all_cases_with_cna_data +case_list_ids: NTN084_Baseline NTN059_Baseline NTN013_Baseline NTN072_Baseline NTN017_Cycle1Day3 NTN004_Baseline NTN049_Baseline NTN038_Cycle1Day3 NTN009_Baseline NTN056_Baseline NTN076_Baseline NTN039_Baseline NTN029_Cycle1Day3 H36960.014_Baseline NTN044_Baseline NTN016_Baseline NTN011_Baseline NTN022_Cycle1Day3 NTN040_Baseline NTN052_Baseline NTN081_Cycle1Day3 H36960.008_Baseline NTN038_Baseline NTN054_Baseline NTN033_Cycle1Day3 NTN062_Baseline NTN084_Cycle1Day3 NTN050_Cycle1Day3 NTN081_Baseline NTN049_Cycle1Day3 NTN006_Cycle1Day3 NTN007_Cycle1Day3 NTN007_Baseline H36960.002_Baseline NTN051_Baseline NTN012_Cycle1Day3 NTN006_Baseline NTN085_Baseline NTN033_Baseline NTN029_Baseline NTN017_Baseline NTN020_Baseline NTN083_Baseline NTN046_Cycle1Day3 NTN025_Cycle1Day3 NTN050_Baseline NTN058_Baseline NTN063_Baseline H36960.019_Baseline NTN069_Baseline NTN005_Baseline H36960.009_Baseline H36960.018_Baseline NTN012_Baseline NTN057_Baseline NTN021_Baseline NTN079_Baseline H36960.023_Baseline NTN060_Baseline NTN078_Baseline NTN067_Baseline NTN062_Cycle1Day3 NTN031_Baseline NTN075_Baseline NTN085_Cycle1Day3 NTN087_Baseline NTN022_Baseline NTN074_Baseline NTN023_Baseline NTN0 diff --git a/public/brca_dldccc_2022/case_lists/cases_cnaseq.txt b/public/brca_dldccc_2022/case_lists/cases_cnaseq.txt new file mode 100644 index 000000000..11abec1bf --- /dev/null +++ b/public/brca_dldccc_2022/case_lists/cases_cnaseq.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: brca_dldccc_2022 +stable_id: brca_dldccc_2022_cnaseq +case_list_name: Samples with mutation and CNA data +case_list_description: Samples with mutation and CNA data (75 samples) +case_list_category: all_cases_with_mutation_and_cna_data +case_list_ids: NTN084_Baseline NTN059_Baseline NTN013_Baseline NTN072_Baseline NTN017_Cycle1Day3 NTN004_Baseline NTN049_Baseline NTN038_Cycle1Day3 NTN009_Baseline NTN056_Baseline NTN076_Baseline NTN039_Baseline NTN029_Cycle1Day3 H36960.014_Baseline NTN044_Baseline NTN016_Baseline NTN011_Baseline NTN022_Cycle1Day3 NTN040_Baseline NTN052_Baseline NTN081_Cycle1Day3 H36960.008_Baseline NTN038_Baseline NTN054_Baseline NTN033_Cycle1Day3 NTN062_Baseline NTN084_Cycle1Day3 NTN050_Cycle1Day3 NTN081_Baseline NTN049_Cycle1Day3 NTN006_Cycle1Day3 NTN007_Cycle1Day3 NTN007_Baseline H36960.002_Baseline NTN051_Baseline NTN012_Cycle1Day3 NTN006_Baseline NTN085_Baseline NTN033_Baseline NTN029_Baseline NTN017_Baseline NTN020_Baseline NTN083_Baseline NTN046_Cycle1Day3 NTN025_Cycle1Day3 NTN050_Baseline NTN058_Baseline NTN063_Baseline H36960.019_Baseline NTN069_Baseline NTN005_Baseline H36960.009_Baseline H36960.018_Baseline NTN012_Baseline NTN057_Baseline NTN021_Baseline NTN079_Baseline H36960.023_Baseline NTN060_Baseline NTN078_Baseline NTN067_Baseline NTN062_Cycle1Day3 NTN031_Baseline NTN075_Baseline NTN085_Cycle1Day3 NTN087_Baseline NTN022_Baseline NTN074_Baseline NTN023_Baseline NTN0 diff --git a/public/brca_dldccc_2022/case_lists/cases_log2CNA.txt b/public/brca_dldccc_2022/case_lists/cases_log2CNA.txt new file mode 100644 index 000000000..28a09ccfc --- /dev/null +++ b/public/brca_dldccc_2022/case_lists/cases_log2CNA.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: brca_dldccc_2022 +stable_id: brca_dldccc_2022_log2CNA +case_list_name: Samples with log2 copy-number data +case_list_description: Samples with log2 copy-number data (75 samples) +case_list_category: all_cases_with_log2_cna_data +case_list_ids: NTN084_Baseline NTN059_Baseline NTN013_Baseline NTN072_Baseline NTN017_Cycle1Day3 NTN004_Baseline NTN049_Baseline NTN038_Cycle1Day3 NTN009_Baseline NTN056_Baseline NTN076_Baseline NTN039_Baseline NTN029_Cycle1Day3 H36960.014_Baseline NTN044_Baseline NTN016_Baseline NTN011_Baseline NTN022_Cycle1Day3 NTN040_Baseline NTN052_Baseline NTN081_Cycle1Day3 H36960.008_Baseline NTN038_Baseline NTN054_Baseline NTN033_Cycle1Day3 NTN062_Baseline NTN084_Cycle1Day3 NTN050_Cycle1Day3 NTN081_Baseline NTN049_Cycle1Day3 NTN006_Cycle1Day3 NTN007_Cycle1Day3 NTN007_Baseline H36960.002_Baseline NTN051_Baseline NTN012_Cycle1Day3 NTN006_Baseline NTN085_Baseline NTN033_Baseline NTN029_Baseline NTN017_Baseline NTN020_Baseline NTN083_Baseline NTN046_Cycle1Day3 NTN025_Cycle1Day3 NTN050_Baseline NTN058_Baseline NTN063_Baseline H36960.019_Baseline NTN069_Baseline NTN005_Baseline H36960.009_Baseline H36960.018_Baseline NTN012_Baseline NTN057_Baseline NTN021_Baseline NTN079_Baseline H36960.023_Baseline NTN060_Baseline NTN078_Baseline NTN067_Baseline NTN062_Cycle1Day3 NTN031_Baseline NTN075_Baseline NTN085_Cycle1Day3 NTN087_Baseline NTN022_Baseline NTN074_Baseline NTN023_Baseline NTN0 \ No newline at end of file diff --git a/public/brca_dldccc_2022/case_lists/cases_protein_quantification.txt b/public/brca_dldccc_2022/case_lists/cases_protein_quantification.txt new file mode 100644 index 000000000..30abec076 --- /dev/null +++ b/public/brca_dldccc_2022/case_lists/cases_protein_quantification.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: brca_dldccc_2022 +stable_id: brca_dldccc_2022_protein_quantification +case_list_name: Samples with protein data (Mass Spec) +case_list_description: Samples with protein data (Mass Spec) (75 samples) +case_list_category: other +case_list_ids: NTN084_Baseline NTN059_Baseline NTN013_Baseline NTN072_Baseline NTN017_Cycle1Day3 NTN004_Baseline NTN049_Baseline NTN038_Cycle1Day3 NTN009_Baseline NTN056_Baseline NTN076_Baseline NTN039_Baseline NTN029_Cycle1Day3 H36960.014_Baseline NTN044_Baseline NTN016_Baseline NTN011_Baseline NTN022_Cycle1Day3 NTN040_Baseline NTN052_Baseline NTN081_Cycle1Day3 H36960.008_Baseline NTN038_Baseline NTN054_Baseline NTN033_Cycle1Day3 NTN062_Baseline NTN084_Cycle1Day3 NTN050_Cycle1Day3 NTN081_Baseline NTN049_Cycle1Day3 NTN006_Cycle1Day3 NTN007_Cycle1Day3 NTN007_Baseline H36960.002_Baseline NTN051_Baseline NTN012_Cycle1Day3 NTN006_Baseline NTN085_Baseline NTN033_Baseline NTN029_Baseline NTN017_Baseline NTN020_Baseline NTN083_Baseline NTN046_Cycle1Day3 NTN025_Cycle1Day3 NTN050_Baseline NTN058_Baseline NTN063_Baseline H36960.019_Baseline NTN069_Baseline NTN005_Baseline H36960.009_Baseline H36960.018_Baseline NTN012_Baseline NTN057_Baseline NTN021_Baseline NTN079_Baseline H36960.023_Baseline NTN060_Baseline NTN078_Baseline NTN067_Baseline NTN062_Cycle1Day3 NTN031_Baseline NTN075_Baseline NTN085_Cycle1Day3 NTN087_Baseline NTN022_Baseline NTN074_Baseline NTN023_Baseline NTN0NTN049_Baseline diff --git a/public/brca_dldccc_2022/case_lists/cases_sequenced.txt b/public/brca_dldccc_2022/case_lists/cases_sequenced.txt new file mode 100644 index 000000000..5c34ee308 --- /dev/null +++ b/public/brca_dldccc_2022/case_lists/cases_sequenced.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: brca_dldccc_2022 +stable_id: brca_dldccc_2022_sequenced +case_list_name: Samples with mutation data +case_list_description: Samples with mutation data (75 samples) +case_list_category: all_cases_with_mutation_data +case_list_ids: NTN084_Baseline NTN059_Baseline NTN013_Baseline NTN072_Baseline NTN017_Cycle1Day3 NTN004_Baseline NTN049_Baseline NTN038_Cycle1Day3 NTN009_Baseline NTN056_Baseline NTN076_Baseline NTN039_Baseline NTN029_Cycle1Day3 H36960.014_Baseline NTN044_Baseline NTN016_Baseline NTN011_Baseline NTN022_Cycle1Day3 NTN040_Baseline 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file mode 100644 index 000000000..d40030a4d --- /dev/null +++ b/public/brca_dldccc_2022/data_clinical_patient.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:12f7f84589d5cadce2b5b1809a9dd74420ff81af87b0632a35a5b7299c15d1ed +size 1247 diff --git a/public/brca_dldccc_2022/data_clinical_sample.txt b/public/brca_dldccc_2022/data_clinical_sample.txt new file mode 100644 index 000000000..98d1ec083 --- /dev/null +++ b/public/brca_dldccc_2022/data_clinical_sample.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:4ab3d36218c9b4056b1fb7468f5b392db119eacae5781d7c344a5ca91602a375 +size 15986 diff --git a/public/brca_dldccc_2022/data_cna.txt b/public/brca_dldccc_2022/data_cna.txt new file mode 100644 index 000000000..75de5558c --- /dev/null +++ b/public/brca_dldccc_2022/data_cna.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:debedfafd94ddd41feb5279bfd44305339c0c5e0ed804fbc9559f696f82f9850 +size 2849748 diff --git a/public/brca_dldccc_2022/data_gene_panel_matrix.txt b/public/brca_dldccc_2022/data_gene_panel_matrix.txt new file mode 100644 index 000000000..3c4015673 --- /dev/null +++ b/public/brca_dldccc_2022/data_gene_panel_matrix.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:968fe845c45ab28151d1a01df23d4975020f9aba99bb268fed5839e986d0f6d2 +size 1886 diff --git a/public/brca_dldccc_2022/data_log2_cna.txt b/public/brca_dldccc_2022/data_log2_cna.txt new file mode 100644 index 000000000..6f4cba9ec --- /dev/null +++ b/public/brca_dldccc_2022/data_log2_cna.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:ef329028473d7d0c3fe846329bcae0310c978e68c4a08a6567f90b2911df27a9 +size 7793158 diff --git a/public/brca_dldccc_2022/data_mrna_seq_rsem.txt b/public/brca_dldccc_2022/data_mrna_seq_rsem.txt new file mode 100644 index 000000000..79298d4d9 --- /dev/null +++ b/public/brca_dldccc_2022/data_mrna_seq_rsem.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:2afea5f0fe373c2fa102135383838e9f6e68dd96ecd21af6e339e32ae6f08145 +size 6281751 diff --git a/public/brca_dldccc_2022/data_mutations.txt b/public/brca_dldccc_2022/data_mutations.txt new file mode 100644 index 000000000..cec5b6ccb --- /dev/null +++ b/public/brca_dldccc_2022/data_mutations.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:70a581b251bb69011928829b5207cc1abd5011ede14c922701a5a6479fd3d83d +size 5984851 diff --git a/public/brca_dldccc_2022/data_protein_quantification.txt b/public/brca_dldccc_2022/data_protein_quantification.txt new file mode 100644 index 000000000..e9a8e4339 --- /dev/null +++ b/public/brca_dldccc_2022/data_protein_quantification.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:e404bed410ff0e2a43f9e70b2354388eb670ff334807814b85bc639fd7a7bb24 +size 5569227 diff --git a/public/brca_dldccc_2022/meta_clinical_patient.txt b/public/brca_dldccc_2022/meta_clinical_patient.txt new file mode 100644 index 000000000..ddd354fc0 --- /dev/null +++ b/public/brca_dldccc_2022/meta_clinical_patient.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: brca_dldccc_2022 +data_filename: data_clinical_patient.txt +genetic_alteration_type: CLINICAL +datatype: PATIENT_ATTRIBUTES diff --git a/public/brca_dldccc_2022/meta_clinical_sample.txt b/public/brca_dldccc_2022/meta_clinical_sample.txt new file mode 100644 index 000000000..2699e15ed --- /dev/null +++ b/public/brca_dldccc_2022/meta_clinical_sample.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: brca_dldccc_2022 +data_filename: data_clinical_sample.txt +genetic_alteration_type: CLINICAL +datatype: SAMPLE_ATTRIBUTES diff --git a/public/brca_dldccc_2022/meta_cna.txt b/public/brca_dldccc_2022/meta_cna.txt new file mode 100644 index 000000000..dbceeb8ec --- /dev/null +++ b/public/brca_dldccc_2022/meta_cna.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: brca_dldccc_2022 +data_filename: data_cna.txt +stable_id: gistic +genetic_alteration_type: COPY_NUMBER_ALTERATION +datatype: DISCRETE +show_profile_in_analysis_tab: TRUE +profile_name: Putative copy-number alterations from GISTIC +profile_description: Putative copy-number calls on cases determined using GISTIC 2.0. Values: -2 = homozygous deletion; -1 = hemizygous deletion; 0 = neutral / no change; 1 = gain; 2 = high level amplification. diff --git a/public/brca_dldccc_2022/meta_gene_panel_matrix.txt b/public/brca_dldccc_2022/meta_gene_panel_matrix.txt new file mode 100644 index 000000000..c6b162b01 --- /dev/null +++ b/public/brca_dldccc_2022/meta_gene_panel_matrix.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: brca_dldccc_2022 +data_filename: data_gene_panel_matrix.txt +genetic_alteration_type: GENE_PANEL_MATRIX +datatype: GENE_PANEL_MATRIX diff --git a/public/brca_dldccc_2022/meta_log2_cna.txt b/public/brca_dldccc_2022/meta_log2_cna.txt new file mode 100644 index 000000000..3eb12eabe --- /dev/null +++ b/public/brca_dldccc_2022/meta_log2_cna.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: brca_dldccc_2022 +data_filename: data_log2_cna.txt +stable_id: log2CNA +genetic_alteration_type: COPY_NUMBER_ALTERATION +datatype: LOG2-VALUE +show_profile_in_analysis_tab: false +profile_name: Log2 copy-number values +profile_description: Log2 copy-number values for each gene. diff --git a/public/brca_dldccc_2022/meta_mrna_seq_rsem.txt b/public/brca_dldccc_2022/meta_mrna_seq_rsem.txt new file mode 100644 index 000000000..18a009b41 --- /dev/null +++ b/public/brca_dldccc_2022/meta_mrna_seq_rsem.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: brca_dldccc_2022 +genetic_alteration_type: MRNA_EXPRESSION +datatype: CONTINUOUS +stable_id: rna_seq_mrna +show_profile_in_analysis_tab: false +profile_description: mRNA gene expression (RNA Seq RSEM) +profile_name: mRNA Expression (RNA Seq RSEM) +data_filename: data_mrna_seq_rsem.txt diff --git a/public/brca_dldccc_2022/meta_mutations.txt b/public/brca_dldccc_2022/meta_mutations.txt new file mode 100644 index 000000000..9bde22b53 --- /dev/null +++ b/public/brca_dldccc_2022/meta_mutations.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: brca_dldccc_2022 +data_filename: data_mutations.txt +stable_id: mutations +genetic_alteration_type: MUTATION_EXTENDED +datatype: MAF +show_profile_in_analysis_tab: TRUE +profile_name: Mutations +profile_description: Mutation data from whole exome sequencing. diff --git a/public/brca_dldccc_2022/meta_protein_quantification.txt b/public/brca_dldccc_2022/meta_protein_quantification.txt new file mode 100644 index 000000000..8d3df281d --- /dev/null +++ b/public/brca_dldccc_2022/meta_protein_quantification.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: brca_dldccc_2022 +data_filename: data_protein_quantification.txt +stable_id: protein_quantification +genetic_alteration_type: PROTEIN_LEVEL +datatype: CONTINUOUS +show_profile_in_analysis_tab: FALSE +profile_name: Protein levels +profile_description: Protein gene level expression data (TMT-MS) diff --git a/public/brca_dldccc_2022/meta_study.txt b/public/brca_dldccc_2022/meta_study.txt new file mode 100644 index 000000000..f8f736971 --- /dev/null +++ b/public/brca_dldccc_2022/meta_study.txt @@ -0,0 +1,7 @@ +cancer_study_identifier: brca_dldccc_2022 +type_of_cancer: brca +name: Triple Negative Breast Cancer (DLDCCC, Cancer Discov 2022) +description: Whole exome sequencing of 59 pre-treatment and 16 post-treatment triple-negative breast cancer samples and their matched normals as part of micro-scaled proteogenomic analysis to identify markers of chemotherapy resistance and response. +pmid: 36001024 +citation: Anurag, Meenakshi et al. Cancer discovery 2022 + diff --git a/public/brca_dldccc_2022/readme.md b/public/brca_dldccc_2022/readme.md new file mode 100644 index 000000000..4bc4ce59d --- /dev/null +++ b/public/brca_dldccc_2022/readme.md @@ -0,0 +1,30 @@ +Clinical Data + +Table S1 + +Mutation Data + +Table 2A: Somatic mutation MAF +Somatic mutations for high tumor content* baseline samples in MAF format + +Copy Number Data + +Table 2B: CNV Log2ratio (data_log2_cna.txt) +Log2 Ratio of somatic copy number alterations for high tumor content* baseline samples + + +Table 2C: CNV GISTIC thresholded (data_cna.txt) +GISTIC thresholded somatic copy number alterations for high tumor content* baseline samples + + +Expression Data + +Table 2D: RNA.RSEM log2 gene median centered (data_mrna_seq_rsem.txt) +Log2 gene median -centered RSEM-based RNA expression for high tumor content* baseline and on-treatment samples + +Table S3B: TMT proteomics, gene level + +Table S3D: TMT phosphoproteomics, gene level + + +* tumor content >45% diff --git a/public/brca_dldccc_2022/~$Book14.xlsx b/public/brca_dldccc_2022/~$Book14.xlsx new file mode 100644 index 000000000..d67ac9a42 Binary files /dev/null and b/public/brca_dldccc_2022/~$Book14.xlsx differ diff --git a/public/ccle_broad_2025/README.md b/public/ccle_broad_2025/README.md new file mode 100644 index 000000000..f73401813 --- /dev/null +++ b/public/ccle_broad_2025/README.md @@ -0,0 +1,16 @@ +DepMap Data README + +Clinical data: + • Data was retrieved from ‘Model.csv’ file from the ‘DepMap Public 25Q2 Files- Primary Files’. + • Samples ID: CCLEName + • Samples without a CCLEName: CellLineName used as Sample ID + • Depmap ID= ModelID + • The cohort is restricted to tumor samples only (all non-cancerous samples (145) were eliminated from the cohort) + • Updated Sample IDs: + VACO 432 --> VACO-432 + YUSEEP-M 16-3517 --> YUSEEP-M-16-3517 + + +Mutation data: + • Data was retrieved from ‘OmicsSomaticMutations.csv’ file from the ‘DepMap Public 25Q2 Files- Primary Files’. + • Annotation with Genome Nexus pipeline \ No newline at end of file diff --git a/public/ccle_broad_2025/case_lists/cases_all.txt b/public/ccle_broad_2025/case_lists/cases_all.txt new file mode 100644 index 000000000..73cb93b18 --- /dev/null +++ b/public/ccle_broad_2025/case_lists/cases_all.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: ccle_broad_2025 +stable_id: ccle_broad_2025_all +case_list_name: All samples +case_list_description: All samples (1970 samples) +case_list_category: all_cases_in_study +case_list_ids: ICC7_BILIARY_TRACT PC3_PROSTATE C99_LARGE_INTESTINE NGP_AUTONOMIC_GANGLIA HN_UPPER_AERODIGESTIVE_TRACT VMCUB1_URINARY_TRACT SNU977_LARGE_INTESTINE NCCIT_TESTIS RCCJF_KIDNEY MFHINO_SOFT_TISSUE HCC15_LUNG CHLA90_AUTONOMIC_GANGLIA HSKTC_OVARY SW13_ADRENAL_CORTEX NB1643_AUTONOMIC_GANGLIA COLO741_SKIN DLD1_LARGE_INTESTINE P32ISH_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SKBR5_BREAST ICC9_BILIARY_TRACT KYSE270_OESOPHAGUS SNU1196_BILIARY_TRACT CCLF_THYR_0009_T 1411H_TESTIS ISTSL2_LUNG EFO27_OVARY 697_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NB12_AUTONOMIC_GANGLIA SNU668_STOMACH NALM6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE D542MG_CENTRAL_NERVOUS_SYSTEM BC2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE LPS141_SOFT_TISSUE YSCCC_BILIARY_TRACT HPBALL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE JOPACA1_PANCREAS MHHES1_BONE SKLU1_LUNG HOS_BONE SKNFI_AUTONOMIC_GANGLIA HOP92_LUNG NCIH716_LARGE_INTESTINE EVSAT_BREAST VAL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HTK_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE JHOM1_OVARY NP5_CENTRAL_NERVOUS_SYSTEM SCC25_UPPER_AERODIGESTIVE_TRACT KIJK_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CCLF_THYR_0003_T TFK1_BILIARY_TRACT PSS131R_Osteosarcoma SEKI_SKIN CCLF_THYR_0001_T CME1_SOFT_TISSUE U178_CENTRAL_NERVOUS_SYSTEM SUDHL2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE OCIAML3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SCH_STOMACH HS936T_SKIN SA3_UPPER_AERODIGESTIVE_TRACT BE13_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE DOTC24510_CERVIX SUM52PE_BREAST SNU738_CENTRAL_NERVOUS_SYSTEM SUDHL5_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CP67MEL_SKIN GOTO_AUTONOMIC_GANGLIA CCLF_THYR_0004_T LN340_CENTRAL_NERVOUS_SYSTEM SNU251_OVARY 59M_OVARY DERL2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE VMM917_SKIN NCIH522_LUNG TE14_OESOPHAGUS PETA_SKIN COLO684_ENDOMETRIUM FEPD_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE JVE015_COLON HT1080_SOFT_TISSUE M07E_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SNU1076_UPPER_AERODIGESTIVE_TRACT SNU398_LIVER CCLF_RARE_0019_T CCLFUPGI0004T_STOMACH OC315_OVARY PANC0327_PANCREAS UMUC5_URINARY_TRACT LS411N_LARGE_INTESTINE NZM12_SKIN COGN305_AUTONOMIC_GANGLIA SHSY5Y_AUTONOMIC_GANGLIA TE8_OESOPHAGUS HDMB03_CENTRAL_NERVOUS_SYSTEM SNU1214_UPPER_AERODIGESTIVE_TRACT LCLC103H_LUNG UPCISCC074_UPPER_AERODIGESTIVE_TRACT NCIH1395_LUNG CCLFNEURO0006T_CENTRAL_NERVOUS_SYSTEM ECC2_BILIARY_TRACT TGBC18TKB_LARGE_INTESTINE NCC-LMS1-C1 HC1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KMS28BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HRT18_LARGE_INTESTINE SKMEL19_SKIN HSC39_STOMACH ICC18_BILIARY_TRACT UMUC7_URINARY_TRACT HMVII_SKIN HMY1_SKIN NCIH1048_LUNG CCLFMELM0005T_SKIN JHOS4_OVARY NAMALWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH2087_LUNG WM88_SKIN CCLF_THYR_0006_T U698M_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CGTHW1_THYROID JEG3_PLACENTA UMRC6_KIDNEY CORL279_LUNG PEER_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE DMS454_LUNG KYAE1_OESOPHAGUS SKNBE2_AUTONOMIC_GANGLIA HTCC3_THYROID OVMIU_OVARY PACADD188_PANCREAS ISTMEL1_SKIN 921_UVEA SKNMM_BRAIN_BONE DMS79_LUNG NZM7_SKIN CCLF_RARE_0010_T PECAPJ41CLONED2_UPPER_AERODIGESTIVE_TRACT C84_LARGE_INTESTINE HSQ89_UPPER_AERODIGESTIVE_TRACT NCIH1607_LUNG HCC461_LUNG 538MGBA_CENTRAL_NERVOUS_SYSTEM EMTOKA_ENDOMETRIUM NCIH2731_PLEURA KPNYS_AUTONOMIC_GANGLIA LN235_CENTRAL_NERVOUS_SYSTEM OS252_BONE CALU3_LUNG CAL33_UPPER_AERODIGESTIVE_TRACT NRH-GCT1 SLVL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HEC1A_ENDOMETRIUM NUGC3_STOMACH GSS_STOMACH OCILY18_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE DSH1_URINARY_TRACT UPCISCC114_UPPER_AERODIGESTIVE_TRACT SF126_CENTRAL_NERVOUS_SYSTEM SW954_CERVIX GB1_CENTRAL_NERVOUS_SYSTEM OCIMY5_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE PEDS005TSUSP_KIDNEY NCCSTCK140_STOMACH NCC-DFSP2-C1 NCC-UPS1-C1 KE97_STOMACH SNU182_LIVER NCIH2004RT_SOFT_TISSUE NB5_AUTONOMIC_GANGLIA S462_SOFT_TISSUE MO91_AML LN405_CENTRAL_NERVOUS_SYSTEM KARPAS1718_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CCLF_MELM_0011_T SNU601_STOMACH NCIH2803_PLEURA CHP212_AUTONOMIC_GANGLIA LOUNH91_LUNG HT29_LARGE_INTESTINE TC106_BONE PACADD159_PANCREAS LB831BLC_URINARY_TRACT MELHO_SKIN OACM51_OESOPHAGUS SET2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE LS1034_LARGE_INTESTINE NCIH660_PROSTATE EW16_BONE NCC-CDS1-X3-C1 ANGMCSS_CENTRAL_NERVOUS_SYSTEM T98G_CENTRAL_NERVOUS_SYSTEM CHLA06ATRT_SOFT_TISSUE SKNSH_AUTONOMIC_GANGLIA RPMI6666_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE RH41_SOFT_TISSUE TE617T_SOFT_TISSUE SKMEL30_SKIN MOLM14_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE ICC3_BILIARY_TRACT MOLT16_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE EB2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KMS20_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HCM-BROD-0489-C15 TTC709_SOFT_TISSUE KNS42_CENTRAL_NERVOUS_SYSTEM BXPC3_PANCREAS STS0421_SOFT_TISSUE MDAMB231_BREAST NCIH2405_LUNG P31FUJ_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE EW7_BONE HCC1195_LUNG NCIH2679_LUNG STS26T_SOFT_TISSUE OVISE_OVARY UPCISCC131_UPPER_AERODIGESTIVE_TRACT CORL32_LUNG CHLA9_BONE TERA1_TESTIS JMSU1_URINARY_TRACT CHLA258_BONE RT4_URINARY_TRACT SNU869_BILIARY_TRACT KY821_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE ML1_THYROID DU145_PROSTATE SKMEL2_SKIN SNUC4_LARGE_INTESTINE KYSE70_OESOPHAGUS HO1U1_UPPER_AERODIGESTIVE_TRACT BC1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE LCAM1_LUNG LB771HNC_UPPER_AERODIGESTIVE_TRACT SKRC31_KIDNEY LB996RCC_KIDNEY KASUMI3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE BICR31_UPPER_AERODIGESTIVE_TRACT HO1N1_UPPER_AERODIGESTIVE_TRACT KYM1_SOFT_TISSUE MM253_SKIN NCIH1793_LUNG EW24_BONE ISTMES2_PLEURA JMURTK2_SOFT_TISSUE TTC549_SOFT_TISSUE OCIM1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SLR24_KIDNEY ICC2_BILIARY_TRACT YD38_UPPER_AERODIGESTIVE_TRACT MZ7MEL_SKIN NCIH1838_LUNG AN3CA_ENDOMETRIUM SNU1327_LUNG COLO704_OVARY LC41_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CCLF_THYR_0005_T WM2664_SKIN MORCPR_LUNG NY_BONE OSC20_UPPER_AERODIGESTIVE_TRACT NCIH920_LUNG JVE367_COLON HEC265_ENDOMETRIUM AU565_BREAST SNU308_BILIARY_TRACT HCC1143_BREAST TGBC11TKB_STOMACH ACCMESO1_PLEURA JIH5_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE U2940_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KARPAS231_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE BICR10_UPPER_AERODIGESTIVE_TRACT MUTZ5_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE G401_SOFT_TISSUE SKGI_ENDOMETRIUM UT7_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE VACO-432 SNU254_LARGE_INTESTINE TE4_OESOPHAGUS BICR3_LUNG SNU119_OVARY 1618K_TESTIS A375_SKIN_CJ1_RESISTANT LAN6_AUTONOMIC_GANGLIA SSP25_BILIARY_TRACT MM383_SKIN PL4_PANCREAS LOVO_LARGE_INTESTINE T3M3_PLACENTA KMLS1_SOFT_TISSUE NB4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE OVMANA_OVARY CMS_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE AML193_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KPNRTBM1_AUTONOMIC_GANGLIA DV90_LUNG OCILY132_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SUM185PE_BREAST SH10TC_STOMACH U138MG_CENTRAL_NERVOUS_SYSTEM MAC2A_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE OPM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE 170MGBA_CENTRAL_NERVOUS_SYSTEM M980513_SKIN NCIH1882_LUNG P30OHK_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE ROS50_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE GMS10_CENTRAL_NERVOUS_SYSTEM SAT_UPPER_AERODIGESTIVE_TRACT NCCUPS2C1_SOFT_TISSUE GT3TKB_STOMACH SHI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE TUHR14TKB_KIDNEY SUM102PT_BREAST SNU878_LIVER GRST_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SKUT1_SOFT_TISSUE FU97_STOMACH PACADD165_PANCREAS SUPB15_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE VMRCRCZ_KIDNEY ZR751_BREAST UPMD1_Melanoma_Eye TE9_OESOPHAGUS UPCISCC116_UPPER_AERODIGESTIVE_TRACT AGS_STOMACH KGN_OVARY KASUMI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE TCYIK_CERVIX JAR_PLACENTA SNU5_STOMACH RAMOS_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NZM1_SKIN SNU267_KIDNEY DOV13_OVARY SW756_CERVIX CCLF_CORE_0002_T MM426_SKIN NALM16_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE RH4_SOFT_TISSUE RPMI2650_UPPER_AERODIGESTIVE_TRACT TTC642_SOFT_TISSUE NCIH2452_PLEURA IPM-BO-053L SNU886_LIVER NCIH520_LUNG NCIH2126_LUNG SUM229PE_BREAST MOLM6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE LN215_CENTRAL_NERVOUS_SYSTEM DOGUM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE Z181_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CCLF_RARE_0020_T LN382_CENTRAL_NERVOUS_SYSTEM NCIH1385_LUNG 1321N1_CENTRAL_NERVOUS_SYSTEM AZ521_SMALL_INTESTINE SKBR7_BREAST A388_SKIN IPM-BO-053R U118MG_CENTRAL_NERVOUS_SYSTEM OZ_BILIARY_TRACT BECKER_CENTRAL_NERVOUS_SYSTEM CHAGOK1_LUNG CJM_SKIN GB2_BILIARY_TRACT SW872_SOFT_TISSUE CORL26_LUNG SKGT2_STOMACH HCC515_LUNG FTC238_THYROID C396_BONE YD8_UPPER_AERODIGESTIVE_TRACT CCLF_MELM_0004_T MCF7_BREAST SUM44PE_BREAST NCIH196_LUNG CCSW1_BILIARY_TRACT NCIH774_LUNG NP2_CENTRAL_NERVOUS_SYSTEM MEC2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE WM983B_SKIN HCC56_LARGE_INTESTINE T84_LARGE_INTESTINE SNU719_STOMACH SKMEL24_SKIN CCLF_MELM_0006_T OV7_OVARY PLB985_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE ICC12_BILIARY_TRACT NCIH2085_LUNG NCIH929_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HCC827GR5_LUNG RAMOS2G64C10_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE JK1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE RPMI8866_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE OCIP5X_OVARY KMS27_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE ZR75B_BREAST HUO9_BONE K5_THYROID U251MGDM_Brain KARPAS1106P_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE RDES_BONE CORL88_LUNG NZM40_SKIN SUDHL10_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE OCIAML2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH1930_LUNG LK2_LUNG CAL62_THYROID MUTZ3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE RF48_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MOGGCCM_CENTRAL_NERVOUS_SYSTEM NCIH1573_LUNG LO68_LUNG HEPG2_LIVER NCIH2347_LUNG COLO800_SKIN SNU1041_UPPER_AERODIGESTIVE_TRACT HCC364_LUNG SKMEL3_SKIN HT144_SKIN_FV1_RESISTANT OVCA433_OVARY UMRC7_KIDNEY DIPG007_CENTRAL_NERVOUS_SYSTEM MM127_SKIN NCIH358_LUNG UPCISCC200_UPPER_AERODIGESTIVE_TRACT SEM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE ABC1_LUNG SUDHL8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SNU423_LIVER A498_KIDNEY 21MT2_BREAST NCCES1C1_BONE NCIH1304_LUNG CAR1_LARGE_INTESTINE HCC2814_LUNG RMGI_OVARY CHSA8926_BONE TK6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH82_LUNG CHLA218_BONE DB_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MDAMB175VII_BREAST BCP1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KATOIII_STOMACH LN443_CENTRAL_NERVOUS_SYSTEM MAMEL46_SKIN TGBC24TKB_BILIARY_TRACT OMM1_UVEA JHH4_LIVER SKOV3_OVARY NCC010_KIDNEY CAL148_BREAST KP363T_COLON ONS76_CENTRAL_NERVOUS_SYSTEM HCC78_LUNG DBTRG05MG_CENTRAL_NERVOUS_SYSTEM NUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE LU165_LUNG CHRF-288-11 SW1271_LUNG SF767_CENTRAL_NERVOUS_SYSTEM HT144_SKIN NCC-SS2-C1 SNU626_CENTRAL_NERVOUS_SYSTEM U2OS_BONE JHH7_LIVER BCPAP_THYROID LAMA84_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE GA10_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCCPRMS1C1_Sarcoma BDCM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CAL29_URINARY_TRACT OCIM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH1092_LUNG SNU1040_LARGE_INTESTINE NMCG1_CENTRAL_NERVOUS_SYSTEM WM1799_SKIN TTC442_SOFT_TISSUE PANFR0402 LS513_LARGE_INTESTINE CCLF_RARE_0025_T A3KAW_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MESOV_OVARY EM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SKES1_BONE HEC59_ENDOMETRIUM LPS510_SOFT_TISSUE HUT78_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HOKUG_CERVIX PC9_LUNG JVE253_COLON ESO51_OESOPHAGUS NUDUL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SUM1315MO2_BREAST CHLA10_BONE KON_UPPER_AERODIGESTIVE_TRACT LN464_CENTRAL_NERVOUS_SYSTEM SNU2292_LUNG BALL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE K029AX_SKIN OVTOKO_OVARY RCCMF_KIDNEY MEL270_UVEA SNU1066_UPPER_AERODIGESTIVE_TRACT NO36_LUNG BHY_UPPER_AERODIGESTIVE_TRACT HKGZCC_BILIARY_TRACT OV17R_OVARY JHUEM1_ENDOMETRIUM NCIH1703_LUNG TGBC1TKB_BILIARY_TRACT NO10_CENTRAL_NERVOUS_SYSTEM H4_CENTRAL_NERVOUS_SYSTEM SNUC5_LARGE_INTESTINE ASPS-KY UMUC11_URINARY_TRACT BC3C_URINARY_TRACT CCLF_RARE_0021_T MDAMB453_BREAST HCC1954_BREAST MPNST724_SOFT_TISSUE NB69_AUTONOMIC_GANGLIA ICC15_BILIARY_TRACT CFPAC1_PANCREAS NCC021_KIDNEY PSS141_BONE CCLF_PEDS_0020_T MJ_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HS860T_BONE UACC257_SKIN TE1_OESOPHAGUS 1777NRPMET_TESTIS NCIH508_LARGE_INTESTINE SNU739_LIVER SIHA_CERVIX NCIH2795_PLEURA OV56_OVARY LAN2_AUTONOMIC_GANGLIA GP5D_LARGE_INTESTINE KALS1_CENTRAL_NERVOUS_SYSTEM CL14_LARGE_INTESTINE HCC1008_BREAST LPS6_SOFT_TISSUE SW620_LARGE_INTESTINE NCIH727_LUNG LI7_LIVER LS123_LARGE_INTESTINE LNZ308_CENTRAL_NERVOUS_SYSTEM PGA1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE VMRCRCW_KIDNEY HUH7_LIVER SNU840_OVARY NCIH1623_LUNG H357_UPPER_AERODIGESTIVE_TRACT PC3JPC3_LUNG UPCISCC029A_UPPER_AERODIGESTIVE_TRACT CCLFOVPA0001T_OVARY PSN1_PANCREAS MONOMAC6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE TASK1_CENTRAL_NERVOUS_SYSTEM UACC3199_BREAST HEC108_ENDOMETRIUM MERO48A_PLEURA LN229_CENTRAL_NERVOUS_SYSTEM HEC1B_ENDOMETRIUM D425_CENTRAL_NERVOUS_SYSTEM NCIH64_LUNG SYO1_SOFT_TISSUE NOMO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MIAPACA2_PANCREAS WM1552C_SKIN MC116_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH1666_LUNG HCC1419_BREAST NCIH187_LUNG COLO668_LUNG NCIH1781_LUNG NCIH2882_LUNG TC71_BONE MP41_UVEA MM415_SKIN MM537_SKIN TT2609C02_THYROID COLO829_SKIN PC14_LUNG SCCH196_SOFT_TISSUE NCIH322_LUNG TOLEDO_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE ETK1_BILIARY_TRACT UMUC13_URINARY_TRACT NCIH2029_LUNG PLCPRF5_LIVER UW228_CENTRAL_NERVOUS_SYSTEM C80_LARGE_INTESTINE U2973_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE A673STAG2KO16_ENGINEERED SW837_LARGE_INTESTINE CAL27_UPPER_AERODIGESTIVE_TRACT SW684_SOFT_TISSUE TT1TKB_LARGE_INTESTINE EFM192A_BREAST NKL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE M059J_CENTRAL_NERVOUS_SYSTEM UACC812_BREAST L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE A673STAG2KO45_ENGINEERED HEC116_ENDOMETRIUM JHH6_LIVER ES2_OVARY SNU2535_LUNG IM95_STOMACH KARPAS299_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SNU478_BILIARY_TRACT CCLF_UPGI_0011_T LOXIMVI_SKIN NCIH1792_LUNG SKMEL31_SKIN UPMD2 SLR20_KIDNEY LNCAPCLONEFGC_PROSTATE SKMES1_LUNG SMSCTR_SOFT_TISSUE EWS834_BONE C10_LARGE_INTESTINE 833KE_TESTIS NCIH740_LUNG BL2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE K562_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH378_LUNG NCO2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE JHU022_UPPER_AERODIGESTIVE_TRACT CCLF_HNSC_0001_T ULA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE LP1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MUTZ8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE H157_UPPER_AERODIGESTIVE_TRACT OUMS27_BONE KMS12BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HEP3B217_LIVER SNU213_PANCREAS COLO792_SKIN FLO1_OESOPHAGUS UMRC2_KIDNEY SF172_CENTRAL_NERVOUS_SYSTEM CCLFPEDS0002T_KIDNEY CCLF_HNSC_0003_T LC1SQ_LUNG HCM-BROD-0477-C16 WSU-AML_PROSTATE 94T778_SOFT_TISSUE REH_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH2373_PLEURA SNUC2B_LARGE_INTESTINE KML1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE ES7_BONE HH_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SCC3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KNS60_CENTRAL_NERVOUS_SYSTEM RAJI_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KYSE450_OESOPHAGUS OSC19_UPPER_AERODIGESTIVE_TRACT HMC18_BREAST HT55_LARGE_INTESTINE LU134A_LUNG A375_SKIN_CJ2_RESISTANT 8505C_THYROID CCLF_PANC_0019_T KMS34_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HTST_EMBRYONAL 42MGBA_CENTRAL_NERVOUS_SYSTEM PK8_PANCREAS DG75_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE WM793_SKIN HS746T_STOMACH ACHN_KIDNEY SCCOHT1_OVARY KPMRTRY_SOFT_TISSUE OAW28_OVARY TCC466_BONE UCSFOT1109_UPPER_AERODIGESTIVE_TRACT NCIN87_STOMACH KARPAS620_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HEL9217_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH1651_LUNG HCC827GR_LUNG YD15_SALIVARY_GLAND NCC-MPNST2-C1 OVCA420_OVARY SW626_LARGE_INTESTINE TL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE L1236_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE AM38_CENTRAL_NERVOUS_SYSTEM MON_SOFT_TISSUE MALME3M_SKIN LS180_LARGE_INTESTINE SBC1_LUNG SAOS2_BONE DL_SOFT_TISSUE NIHOVCAR3_OVARY HSSCH2_CENTRAL_NERVOUS_SYSTEM NTERA2CLD1_TESTIS UPCISCC072_UPPER_AERODIGESTIVE_TRACT MCAS_OVARY NCIH747_LARGE_INTESTINE KCIMOH1_PANCREAS COLO201_LARGE_INTESTINE MOGGUVW_CENTRAL_NERVOUS_SYSTEM NCIH345_LUNG HCC1833_LUNG CAL39_VULVA D423MG_CENTRAL_NERVOUS_SYSTEM Z138_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH2869_PLEURA DEL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE UPCISCC172_UPPER_AERODIGESTIVE_TRACT NCIH684_LARGE_INTESTINE ONE58_LUNG HT144_SKIN_FV3_RESISTANT HS695T_SKIN T3M10_LUNG SNU81_LARGE_INTESTINE NCC-MPNST1-C1 CCLF_UPGI_0012_T MFE296_ENDOMETRIUM EMCBAC2_LUNG HCC95_LUNG P3HR1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE EJ1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE C33A_CERVIX NCIH2172_LUNG NCIH2196_LUNG PCI38_UPPER_AERODIGESTIVE_TRACT NCIH446_LUNG A431_SKIN DMS153_LUNG KMS11_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE A375_SKIN_CJ3_RESISTANT COLO849_SKIN SC1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE M040416_SKIN CCLF_NEURO_0046_T NCIH1819_LUNG 786O_KIDNEY RHJT_SOFT_TISSUE TGBC52TKB_BILIARY_TRACT GBM001_CENTRAL_NERVOUS_SYSTEM CCLFUPGI0009T_GASTRIC CCLF_RARE_0009_T GCIY_STOMACH MM603_SKIN EFM19_BREAST OCILY3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KKU055_BILIARY_TRACT UMUC3_URINARY_TRACT SW527_LARGE_INTESTINE CCLFMELM0001T_SKIN KINGS1_CENTRAL_NERVOUS_SYSTEM HUPT3_PANCREAS HSC1_SKIN T3M11_LUNG TN2_AUTONOMIC_GANGLIA KNS62_LUNG SKGT4_OESOPHAGUS MDAMB361_BREAST JVE187_COLON KASUMI2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CCLFPEDS0003T_SOFT_TISSUE C75_LARGE_INTESTINE SIGM5_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH2291_LUNG PFEIFFER_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE PK1_PANCREAS LASCPC01_Prostate SKMEL28_SKIN JIMT1_BREAST KMH2_THYROID KYO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MP46_UVEA NALM1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE GUMBUS_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE DKMG_CENTRAL_NERVOUS_SYSTEM NRH-MFS3 SJSA1_BONE ICC137_BILIARY_TRACT SCABER_URINARY_TRACT NCIH1755_LUNG CCLF_HNSC_0004_T MOT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE COLO794_SKIN HL60_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MINO_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE TANOUE_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE OANC1_OESOPHAGUS IGR39_SKIN CHLA15_AUTONOMIC_GANGLIA NKM1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CTV1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE JHU029_UPPER_AERODIGESTIVE_TRACT BB49HNC_UPPER_AERODIGESTIVE_TRACT SQ1_LUNG TMK1_STOMACH NCIH322M_LUNG HUT102_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SKMM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE PANFR0420 RT11284_URINARY_TRACT ASPC1_PANCREAS HKBMM_CENTRAL_NERVOUS_SYSTEM TUHR10TKB_KIDNEY RPMI8226_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH1105_LUNG HEC151_ENDOMETRIUM CAL120_BREAST MERO41_PLEURA CCLF_HEME_0004_T OVK18_OVARY KMOE2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE 93T449_SOFT_TISSUE SW1463_LARGE_INTESTINE WERIRB1_AUTONOMIC_GANGLIA CAKI1_KIDNEY KMS21BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MPP89_PLEURA HSSYII_LUNG COLO205_LARGE_INTESTINE NCIH524_LUNG NCIH2122_LUNG TE10_OESOPHAGUS SCLC22H_LUNG MOLM1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MERO82_PLEURA HUH1_LIVER RCHACV_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KHM1B_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SNU8_OVARY SW1417_LARGE_INTESTINE 8305C_THYROID CCLF_UPGI_0052_T SKNDZ_AUTONOMIC_GANGLIA PATU8902_PANCREAS HSC3_UPPER_AERODIGESTIVE_TRACT ES8_BONE M00921_SKIN MAVER1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE A673STAG2NT23_ENGINEERED OCILY10_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE EB1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE GLC82_LUNG DMS273_LUNG KURAMOCHI_OVARY HS852T_SKIN COLO680N_OESOPHAGUS D384_CENTRAL_NERVOUS_SYSTEM CCLFPEDS0026T_KIDNEY RERFLCAD2_LUNG NH12_AUTONOMIC_GANGLIA HS611T_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KMS26_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE BICR22_UPPER_AERODIGESTIVE_TRACT SNU216_STOMACH NCIH3122_LUNG MESSA_SOFT_TISSUE A704_KIDNEY JVM3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SS1A_SOFT_TISSUE HMCB_SKIN KNS81FD_CENTRAL_NERVOUS_SYSTEM HCC2218_BREAST OE19_OESOPHAGUS MRKNU1_BREAST BEN_LUNG UMC11_LUNG TE5_OESOPHAGUS SNU283_LARGE_INTESTINE CHL1DM_SKIN NCIH2009_LUNG S117_THYROID HUG1N_STOMACH MDST8_LARGE_INTESTINE MERO95_PLEURA RH18_SOFT_TISSUE D556_CENTRAL_NERVOUS_SYSTEM SW1710_URINARY_TRACT CORL23_LUNG K2_SKIN PANC0813_PANCREAS MY_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE ETCC016_LUNG A253_SALIVARY_GLAND CORL105_LUNG NCC-MPNST3-X2-C1 PACADD137_PANCREAS EOL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE WM115_SKIN INA6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NB17_AUTONOMIC_GANGLIA A427_LUNG SNU46_UPPER_AERODIGESTIVE_TRACT LOUCY_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SW579_THYROID MM370_SKIN ONDA7_CENTRAL_NERVOUS_SYSTEM OCUG1_BILIARY_TRACT D263MG_CENTRAL_NERVOUS_SYSTEM SUSA_TESTIS MOLT13_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KU1919_URINARY_TRACT GSU_STOMACH 451LU_SKIN PL21_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HT3_CERVIX SUM225CWN_BREAST CW9019_SOFT_TISSUE NCIH2106_LUNG NCIH1435_LUNG IS076P_OESOPHAGUS ICC8_BILIARY_TRACT HCC2185_BREAST CA46_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NZM30_SKIN 253JBV_URINARY_TRACT TB096_BRAIN COGE352_BONE MG63_BONE SW1088_CENTRAL_NERVOUS_SYSTEM SW48_LARGE_INTESTINE FUOV1_OVARY HCC1569_BREAST IMR32_AUTONOMIC_GANGLIA SUM159PT_BREAST GAMG_CENTRAL_NERVOUS_SYSTEM HS683_CENTRAL_NERVOUS_SYSTEM SNU1033_LARGE_INTESTINE G402_SOFT_TISSUE JHOS3_OVARY SNU201_CENTRAL_NERVOUS_SYSTEM IGR1_SKIN NK92MI_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE TC138_BONE HDLM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH526_LUNG SN12C_KIDNEY PA1_OVARY COLO320_LARGE_INTESTINE GRM_SKIN NH6_AUTONOMIC_GANGLIA ESS1_ENDOMETRIUM SNU475_LIVER UACC893_BREAST MERO25_PLEURA CHLA99_BONE OCILY12_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH647_LUNG NP3_CENTRAL_NERVOUS_SYSTEM BL41_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NZM3_SKIN SKMEL5_SKIN EJM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NALM19_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CAOV4_OVARY NCC-MFS1-C1 DOK_UPPER_AERODIGESTIVE_TRACT CASKI_CERVIX MDAMB415_BREAST HOTHC_THYROID PANC0203_PANCREAS D247MG_CENTRAL_NERVOUS_SYSTEM IHH4_THYROID CCLF_NEURO_0005_T NP8_CENTRAL_NERVOUS_SYSTEM C3A_LIVER NCIH810_LUNG MEG01_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE COV434_OVARY CCRFCEM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE PECAPJ49_UPPER_AERODIGESTIVE_TRACT LMSU_STOMACH SW900_LUNG IOMMLEE_CENTRAL_NERVOUS_SYSTEM SNU1460_LARGE_INTESTINE HMMME_LUNG NCIH2030_LUNG F5_CENTRAL_NERVOUS_SYSTEM MELJUSO_SKIN HA7RCC_KIDNEY TE441T_SOFT_TISSUE WAOSEL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH596_LUNG A4FUK_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH2171_LUNG NCIH1355_LUNG BC3_PLEURA COV413A_OVARY NCIH3255_LUNG KKU213_BILIARY_TRACT MM100511 U2946_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SLR21_KIDNEY OE33_OESOPHAGUS KYSE140_OESOPHAGUS NCIH295R_AUTONOMIC_GANGLIA 1156QE8_TESTIS RS411_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CTB1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SISO_CERVIX BCK4 NB7_AUTONOMIC_GANGLIA HCC4006_LUNG MOLM13_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE LNZTA3WT4_CENTRAL_NERVOUS_SYSTEM CI34601_CENTRAL_NERVOUS_SYSTEM DL221_SOFT_TISSUE ONDA8_CENTRAL_NERVOUS_SYSTEM SH2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE JHH5_LIVER KMM1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH2110_LUNG NBTU110_AUTONOMIC_GANGLIA CCLF_MELM_0038_T CADOES1_BONE HCC2450_LUNG OCIAML4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HCC1897_LUNG JHUEM3_ENDOMETRIUM SKGIIIA_CERVIX SF539_CENTRAL_NERVOUS_SYSTEM SNU1406_COLON NCIH889_LUNG UMUC6_URINARY_TRACT HCT116_LARGE_INTESTINE CCLF_HEME_0001_T LU138_LUNG MKN1_STOMACH NCIH1734_LUNG UMUC16_URINARY_TRACT HCC33_LUNG MM160113_SKIN 5637_URINARY_TRACT MFE280_ENDOMETRIUM HUPT4_PANCREAS HUCCT1_BILIARY_TRACT HEC6_ENDOMETRIUM KMRC20_KIDNEY MM576_SKIN HCC2108_LUNG BICR18_UPPER_AERODIGESTIVE_TRACT MONOMAC1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CHL1_SKIN HSC2_UPPER_AERODIGESTIVE_TRACT KCL22_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE JHU011_UPPER_AERODIGESTIVE_TRACT KP1N_PANCREAS HSC4_UPPER_AERODIGESTIVE_TRACT BONNA12_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HT1376_URINARY_TRACT HT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE PSS112_BONE OVCAR5_OVARY MYLA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE RCC10RGB_KIDNEY NCIH1618_LUNG P12ICHIKAWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE LN428_CENTRAL_NERVOUS_SYSTEM CL34_LARGE_INTESTINE DMS53_LUNG MDAMB330_BREAST TOV112D_OVARY CI_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE PACADD119_PANCREAS SW1353_BONE PACADD161_PANCREAS SW1990_PANCREAS HCC366_LUNG CCLFPEDS0022T_KIDNEY EFO21_OVARY CMLT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MCC26_SKIN KARPAS45_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SNUC1_LARGE_INTESTINE EW1_BONE EN_ENDOMETRIUM DANG_PANCREAS MKN28_STOMACH JSC1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE DL40_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE DETROIT562_UPPER_AERODIGESTIVE_TRACT KYSE30_OESOPHAGUS J82_URINARY_TRACT BB65RCC_KIDNEY P2URK562_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HEY_OVARY SR786_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SW1783_CENTRAL_NERVOUS_SYSTEM HLC1_LUNG HCC44_LUNG WILL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE GI1_CENTRAL_NERVOUS_SYSTEM MDAMB436_BREAST A673_BONE EBC1_LUNG NOS1_BONE SKGII_ENDOMETRIUM CCLFPEDS0010T_BONE SNU407_LARGE_INTESTINE MZ1PC_PANCREAS C242_BONE MHHCALL3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SNU16_STOMACH HCC2157_BREAST KE39_STOMACH HPAC_PANCREAS PANC1005_PANCREAS UACC3133_BREAST MOLP2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE COLO775_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE BHT101_THYROID SNUC2A_LARGE_INTESTINE MM1S_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KMBC2_URINARY_TRACT GRANTA452_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HCM-BROD-0098-C15 UOK101_KIDNEY MS751_CERVIX LPS27_SOFT_TISSUE KMS18_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CCLF_UPGI_0041_T KELLY_AUTONOMIC_GANGLIA EW12_BONE DND41_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HS294T_SKIN SUPM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH2887_LUNG LU143_LUNG UPMM2 UPMM3 OCIC5X_OVARY CCLF_UPGI_0068_T PK59_PANCREAS HCC202_BREAST MFE319_ENDOMETRIUM PANC0403_PANCREAS MOLT4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE OCUBM_BREAST CCC5_BILIARY_TRACT NCIH1155_LUNG OE21_OESOPHAGUS SNB19_CENTRAL_NERVOUS_SYSTEM HEC1_ENDOMETRIUM RI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HCC1500_BREAST F36P_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE BIN67_OVARY HCC1806_BREAST CALU1_LUNG L82_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE OCUM1_STOMACH TO14_OVARY MKL1_SKIN KMS28PE_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CCK81_LARGE_INTESTINE TR146_UPPER_AERODIGESTIVE_TRACT FADU_UPPER_AERODIGESTIVE_TRACT HLE_LIVER HCC3153_BREAST JVM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH1770_LUNG A1207_CENTRAL_NERVOUS_SYSTEM PSS089_BONE NRH-LMS1 NRH-LMS2 NCIH748_LUNG WAHT_LUNG NH93T ECGI10_OESOPHAGUS MM485_SKIN IPC298_SKIN 8MGBA_CENTRAL_NERVOUS_SYSTEM T3M5_THYROID KMRC1_KIDNEY NCIH1184_LUNG OAW42_OVARY D566MG_CENTRAL_NERVOUS_SYSTEM CHLA136_AUTONOMIC_GANGLIA T24_URINARY_TRACT NOZ_LIVER NCIH460_LUNG KHYG_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE H513_LUNG JHUEM7_ENDOMETRIUM UCH2_BONE TC32_BONE HPAFII_PANCREAS SNU1750_STOMACH D392MG_CENTRAL_NERVOUS_SYSTEM UCSDAML1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE JURKAT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MERO84_PLEURA NCIH2228_LUNG SUMB002_CENTRAL_NERVOUS_SYSTEM NCIH1915_LUNG NZM11_SKIN CCLF_HNSC_0002_T GDM1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE BT20_BREAST OVKATE_OVARY EW18_BONE C393_BONE TC205_BONE CCLFPEDS0014T1_AUTONOMIC_GANGLIA HLF_LIVER JJN3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HEL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SUDHL4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HAL01_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE COV362_OVARY SNGM_ENDOMETRIUM 127399_SOFT_TISSUE UMRC3_KIDNEY SW948_LARGE_INTESTINE NCIH292_LUNG COV318_OVARY WSUDLCL2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KASUMI6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE JVE528_COLON PL45_PANCREAS M059K_CENTRAL_NERVOUS_SYSTEM HSOS1_BONE SHP77_LUNG NCIH2342_LUNG 21NT_BREAST BICR78_UPPER_AERODIGESTIVE_TRACT TE15_OESOPHAGUS LU65_LUNG DOGKIT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MM386_SKIN RL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CHLA57_BONE NCIH69_LUNG SNU387_LIVER VP229_BREAST T3M4_PANCREAS NCIH2286_LUNG PANC0504_PANCREAS RH30_SOFT_TISSUE LC2AD_LUNG SKHEP1_LIVER H413_UPPER_AERODIGESTIVE_TRACT OC314_OVARY SNU685_ENDOMETRIUM M1203273_SKIN VP267_BREAST HS578T_BREAST WM3772F_EYE NCIH146_LUNG SU8686_PANCREAS SNU2372_BREAST MAMEL27_SKIN MM28_UVEA H103_UPPER_AERODIGESTIVE_TRACT CAKI2_KIDNEY 95T1000_SOFT_TISSUE HCC1187_BREAST YUHOIN0650_Melanoma_Skin SBC3_LUNG KYSE520_OESOPHAGUS HELA_CERVIX NCIH1341_LUNG COLO818_SKIN TCCSUP_URINARY_TRACT UACC62_SKIN MFM223_BREAST CCLFMELM0002T_SKIN CAL851_BREAST CMK86_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE UPCISCC090_UPPER_AERODIGESTIVE_TRACT HCC1359_LUNG TM31_CENTRAL_NERVOUS_SYSTEM BE2M17_AUTONOMIC_GANGLIA JHUEM2_ENDOMETRIUM CCLFPEDS0008T_SOFT_TISSUE NCIH23_LUNG RMSYM_SOFT_TISSUE 769P_KIDNEY CAPAN1_PANCREAS DU4475_BREAST MS1_SKIN SNU324_PANCREAS PATU8988T_PANCREAS NCIH1693_LUNG KD_SOFT_TISSUE CCLF_PEDS_0043_T NCIH2227_LUNG ICC106_BILIARY_TRACT DMS114_LUNG CCLF_NPDX_0008_T YD10B_UPPER_AERODIGESTIVE_TRACT HCC1599_BREAST SNU175_LARGE_INTESTINE LPS853_SOFT_TISSUE SNU620_STOMACH PANFR0069 EW22_BONE UACC62_SKIN_CJ1_RESISTANT MMACSF_SKIN MOTN1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE UMUC4_URINARY_TRACT SW780_URINARY_TRACT JHU028_LUNG PSS050_BONE LXF289_LUNG PANFR0233 DJM1_SKIN MCC142_SKIN NCIH1975_LUNG PECAPJ15_UPPER_AERODIGESTIVE_TRACT Y79_AUTONOMIC_GANGLIA TT_OESOPHAGUS HS856T_SOFT_TISSUE HDMYZ_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE LPS067_SOFT_TISSUE HUTU80_SMALL_INTESTINE SNU466_CENTRAL_NERVOUS_SYSTEM L428_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HUH6_LIVER MOLM16_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE UWB1289_OVARY RO82W1_THYROID NCIH2722_PLEURA D502MG_CENTRAL_NERVOUS_SYSTEM HEC251_ENDOMETRIUM SKNO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HCC1438_LUNG CORL47_LUNG NCIH2444_LUNG MDAMB134VI_BREAST 600MPE_BREAST SW403_LARGE_INTESTINE PCI15A_UPPER_AERODIGESTIVE_TRACT HDQP1_BREAST UMUC10_URINARY_TRACT RL952_ENDOMETRIUM ONCODG1_OVARY SUDHL6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE IALM_LUNG IS076A_OESOPHAGUS SNU761_LIVER WSUNHL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE JHESOAD1_OESOPHAGUS CBAGPN_BONE H376_UPPER_AERODIGESTIVE_TRACT NZM43_SKIN NB14_AUTONOMIC_GANGLIA CAL54_KIDNEY FTC133_THYROID ST486_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NMB_AUTONOMIC_GANGLIA TGW_AUTONOMIC_GANGLIA SLR26_KIDNEY KPNYN_AUTONOMIC_GANGLIA ACN_AUTONOMIC_GANGLIA KLM1_PANCREAS RVH421_SKIN SKNAS_AUTONOMIC_GANGLIA SCC15_UPPER_AERODIGESTIVE_TRACT CCLFTHYR0008T_THYROID FKH1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HOP62_LUNG SNU449_LIVER CAS1_CENTRAL_NERVOUS_SYSTEM CCFSTTG1_CENTRAL_NERVOUS_SYSTEM MEL290_UVEA CCLF_UPGI_0085_T D341MED_CENTRAL_NERVOUS_SYSTEM PANC1_PANCREAS JHOS2_OVARY MMAC_SKIN ICC108_BILIARY_TRACT SKN_ENDOMETRIUM TKKK_BILIARY_TRACT NH84T NCIH1563_LUNG U266B1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE LU99_LUNG HAP1_ENGINEERED HHUA_ENDOMETRIUM SW480_LARGE_INTESTINE DAOY_CENTRAL_NERVOUS_SYSTEM CORL24_LUNG TYKNU_OVARY CCLF_RARE_0022_T ISHIKAWAHERAKLIO02ER_ENDOMETRIUM NCIH510_LUNG MDAMB157_BREAST LN319_CENTRAL_NERVOUS_SYSTEM RCCAB_KIDNEY COGN278_AUTONOMIC_GANGLIA EGI1_BILIARY_TRACT EMCBAC1_LUNG MM466_SKIN JL1_PLEURA HCC2429_LUNG TERA2_TESTIS SKCO1_LARGE_INTESTINE KYSE510_OESOPHAGUS A673STAG2NT14_ENGINEERED KYSE150_OESOPHAGUS SNU482_KIDNEY 253J_URINARY_TRACT NCC-CDS1-X1-C1 ALLPO_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCCOS1X2C1_BONE VMRCLCP_LUNG ICC6_BILIARY_TRACT MCIXC_BONE D458_CENTRAL_NERVOUS_SYSTEM CMK_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CHSA0011_BONE SNU520_STOMACH ECC4_LARGE_INTESTINE MKN7_STOMACH H3118_UPPER_AERODIGESTIVE_TRACT KP2_PANCREAS EW11_BONE ESO26_OESOPHAGUS ATN1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CCLFPEDS0007T_BONE HCC1937_BREAST SNB75_CENTRAL_NERVOUS_SYSTEM SW982_SOFT_TISSUE KP4_PANCREAS CACO2_LARGE_INTESTINE WM35_SKIN ES5_BONE MACLS2_BREAST YMB1E_BREAST JVE127_COLON IPM-BO-056 SAS_UPPER_AERODIGESTIVE_TRACT NCIH209_LUNG BICR16_UPPER_AERODIGESTIVE_TRACT C2BBE1_LARGE_INTESTINE HT144_SKIN_FV2_RESISTANT HCSC1_CERVIX HGC27_STOMACH PATU8988S_PANCREAS HUNS1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HTMMT_ENDOMETRIUM RERFLCKJ_LUNG OSRC2_KIDNEY ICC16_BILIARY_TRACT YUSEEP-M-16-3517 SMZ1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE TOV21G_OVARY ES6_BONE RCCJW_KIDNEY TE12_OESOPHAGUS NCIH838_LUNG KMRC2_KIDNEY NCIH847_LUNG UPCISCC099_UPPER_AERODIGESTIVE_TRACT SKNMC_BONE HCC2279_LUNG AMO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE EKVX_LUNG C125PM_LARGE_INTESTINE CHP134_AUTONOMIC_GANGLIA NCCDCS1C1_BONE LU99A_LUNG HCC2935_LUNG PCM6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HSC5_SKIN ASH3_THYROID TOM1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE WSUFSCCL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SCC4_UPPER_AERODIGESTIVE_TRACT DAUDI_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE YKG1_CENTRAL_NERVOUS_SYSTEM SNU1077_ENDOMETRIUM HCC1171_LUNG NCIH157DM_LUNG OSU-Des23 KNS81_CENTRAL_NERVOUS_SYSTEM KU812_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE EB3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE U937_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE VCAP_PROSTATE CCLF_UPGI_0101_T BL70_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE A101D_SKIN KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE UMUC14_URINARY_TRACT RH36_SOFT_TISSUE CCLF_UPGI_0036_T CAL78_BONE KM12_LARGE_INTESTINE CS1_BONE A204_SOFT_TISSUE KS1_CENTRAL_NERVOUS_SYSTEM MZ2MEL_SKIN COGAR359_SOFT_TISSUE LN18_CENTRAL_NERVOUS_SYSTEM U2904_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CCLF_PEDS_0048_T NRH-GCT2 SNU1079_BILIARY_TRACT MYM12_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE OACP4C_OESOPHAGUS CHLA266_SOFT_TISSUE PEO1_OVARY OVCAR8_OVARY NCIH1437_LUNG HS445_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SF295_CENTRAL_NERVOUS_SYSTEM MHHCALL2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE UPCISCC111_UPPER_AERODIGESTIVE_TRACT CH157MN_CENTRAL_NERVOUS_SYSTEM MET2B_SKIN TCCPAN2_PANCREAS KMRC3_KIDNEY SUM190PT_BREAST FUJI_SOFT_TISSUE CP50MELB_SKIN LU135_LUNG SH4_SKIN SNU1411_LARGE_INTESTINE OMC1_CERVIX YMB1_BREAST WM278_SKIN NCIH1648_LUNG RC_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE G361_SKIN C4II_CERVIX TY82_UPPER_AERODIGESTIVE_TRACT ICC10_BILIARY_TRACT CL11_LARGE_INTESTINE CHLA01RMED_BRAIN SKN3_UPPER_AERODIGESTIVE_TRACT CMK115_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CAPAN2_PANCREAS CCLF_PANC_0074_T SLR23_KIDNEY CORL51_LUNG RT112_URINARY_TRACT SUIT2_PANCREAS NCIH2591_PLEURA RKN_SOFT_TISSUE NB6_AUTONOMIC_GANGLIA NCIH2081_LUNG VAESBJ_SOFT_TISSUE CCLF_UPGI_0078_T PK45H_PANCREAS NCIH1869_LUNG U343_CENTRAL_NERVOUS_SYSTEM RCC4_KIDNEY PANFR0368 COV504_OVARY NZM4_SKIN UKE-1 ME180_CERVIX UMUC1_URINARY_TRACT SG231_BILIARY_TRACT NCIH441_LUNG QIMRWIL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MX1_BREAST MKL2_SKIN TT_THYROID MHHPREB1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SNU1_STOMACH NCIH1450_LUNG CHLA02ATRT_BRAIN CCLFUPGI0003T_STOMACH KO52_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MEWO_SKIN NCIH1694_LUNG MOLT3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE VMRCMELG_SKIN CA922_UPPER_AERODIGESTIVE_TRACT SUPB8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE BT474_BREAST EPLC272H_LUNG BLUE1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HSPSS_CENTRAL_NERVOUS_SYSTEM BFTC905_URINARY_TRACT HT115_LARGE_INTESTINE YAMATO_SOFT_TISSUE NRH-UPS2 ICC5_BILIARY_TRACT CL40_LARGE_INTESTINE CAL72_BONE PFSK1_CENTRAL_NERVOUS_SYSTEM ECC10_STOMACH KYSE220_OESOPHAGUS ISTSL1_LUNG A549H3_Lung SNU1544_LARGE_INTESTINE PACADD135_PANCREAS NCIH2804_PLEURA CAOV3_OVARY U87MG_CENTRAL_NERVOUS_SYSTEM MOLP8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KG1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE TEN_ENDOMETRIUM RKO_LARGE_INTESTINE C32_SKIN A549_LUNG SKNEP1_BONE COLO320HSR_LARGE_INTESTINE MKN74_STOMACH NZM2_SKIN COLO679_SKIN SUM149PT_BREAST THP1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH1650_LUNG BROLI_SKIN M14_SKIN HEYA8_OVARY NCIH1417_LUNG NCIH1963_LUNG NCIH630_LARGE_INTESTINE LUDLU1_LUNG CCLFPEDS0019T_BONE MS1_LUNG RD_SOFT_TISSUE CORL95_LUNG SCLC21H_LUNG CCLF_RARE_0004_T DIFI_LARGE_INTESTINE H314_UPPER_AERODIGESTIVE_TRACT CESS_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE UBLC1_URINARY_TRACT OCIC4P_OVARY LCLC97TM1_LUNG TE6_OESOPHAGUS CPCN_LUNG T47D_BREAST NCIH661_LUNG NB10_AUTONOMIC_GANGLIA EWS502_BONE NCIH2023_LUNG D283MED_CENTRAL_NERVOUS_SYSTEM BT12_SOFT_TISSUE SNU503_LARGE_INTESTINE SUPT11_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KG1C_CENTRAL_NERVOUS_SYSTEM SNU1272_KIDNEY OV90_OVARY TTC1240_SOFT_TISSUE KMCH1_BILIARY_TRACT TF1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE YT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SBC5_LUNG OCILY7_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE G292CLONEA141B1_BONE JHH2_LIVER NCIH1876_LUNG SNU245_BILIARY_TRACT UPCISCC152_UPPER_AERODIGESTIVE_TRACT CCLP1_BILIARY_TRACT A172_CENTRAL_NERVOUS_SYSTEM ML2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE UMUC9_URINARY_TRACT RERFLCSQ1_LUNG A2058_SKIN JHOC5_OVARY HOUAI_ENDOMETRIUM BICR6_UPPER_AERODIGESTIVE_TRACT HCM-BROD-0100-C15 SKMEL1_SKIN NCIH1944_LUNG RPMI8402_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SNU61_LARGE_INTESTINE NCIH2810_PLEURA YH13_CENTRAL_NERVOUS_SYSTEM CCLF_PEDS_0013_T KYSE410_OESOPHAGUS SKBR3_BREAST CAL12T_LUNG GAK_SKIN VMRCLCD_LUNG A375_SKIN BB30HNC_UPPER_AERODIGESTIVE_TRACT LB2241RCC_KIDNEY JIYOYEP2003_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCCCCS1BC1_Sarcoma_Clear_Cell NO11_CENTRAL_NERVOUS_SYSTEM KARPAS422_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HS766T_PANCREAS RCM1_LARGE_INTESTINE PCI4B_UPPER_AERODIGESTIVE_TRACT SCS214_SOFT_TISSUE 21MT1_BREAST HT1197_URINARY_TRACT U251MG_CENTRAL_NERVOUS_SYSTEM 201T_LUNG HCC38_BREAST NCIH226_LUNG NCIH211_LUNG SNU1235_LARGE_INTESTINE NB1_AUTONOMIC_GANGLIA NZM6_SKIN MDAMB435S_SKIN CALU6_LUNG SW1573_LUNG PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HCC2998_LARGE_INTESTINE HUH28_BILIARY_TRACT ES4_BONE JURLMK1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH841_LUNG UPCISCC026_UPPER_AERODIGESTIVE_TRACT OVSAHO_OVARY RC2_SOFT_TISSUE HIRSBM_ENDOMETRIUM CP66MEL_SKIN RXF393_KIDNEY LB647SCLC_LUNG RMUGS_OVARY GISTT1_STOMACH H2369_PLEURA A2780_OVARY NCCMPNST3C1_MPNST NCIH2141_LUNG NCIH128_LUNG TM87_SOFT_TISSUE SNU1105_CENTRAL_NERVOUS_SYSTEM OUMS23_LARGE_INTESTINE IGROV1_OVARY SLR25_KIDNEY LU139_LUNG SNU489_CENTRAL_NERVOUS_SYSTEM CAMA1_BREAST ES1_BONE MCC13_SKIN TK10_KIDNEY Z119_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KPNSI9S_AUTONOMIC_GANGLIA JHOM2B_OVARY HCS2_CERVIX ES3_BONE NCIH2461_PLEURA SKPNDW_BONE BFTC909_KIDNEY OC316_OVARY HS633T_SOFT_TISSUE SNU638_STOMACH MDAMB468_BREAST HNT34_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE LB2518MEL_SKIN YAPC_PANCREAS ME1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SF268_CENTRAL_NERVOUS_SYSTEM NCIH1299_LUNG CORL303_LUNG SCC9_UPPER_AERODIGESTIVE_TRACT CCLF_PANC_0002_T RBE_BILIARY_TRACT JHH1_LIVER HCT8_LARGE_INTESTINE HEC50B_ENDOMETRIUM LS_AUTONOMIC_GANGLIA HCC2688_BREAST SW1116_LARGE_INTESTINE NUGC2_STOMACH MB1_THYROID NCIH1436_LUNG SIMA_AUTONOMIC_GANGLIA 9505BIK_PANCREAS NBSUSSR_AUTONOMIC_GANGLIA L540_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE RERFLCAD1_LUNG NCIH2066_LUNG 647V_URINARY_TRACT HF_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE UPCISCC154_UPPER_AERODIGESTIVE_TRACT COLO824_BREAST H9_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE COV644_OVARY NCIH2052_PLEURA TUR_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE EW3_BONE HKA1_SKIN SNU1197_LARGE_INTESTINE H290_PLEURA KP3_PANCREAS BICR56_UPPER_AERODIGESTIVE_TRACT NCIH2595_PLEURA CHSA0108_BONE CX03_ENDOMETRIUM BT483_BREAST UHO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE JR_SOFT_TISSUE CORL321_LUNG HCC1428_BREAST 22RV1_PROSTATE REC1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CCLFNEURO0001T_CENTRAL_NERVOUS_SYSTEM RMZ_SOFT_TISSUE ICC4_BILIARY_TRACT HCC1395_BREAST NZM42_SKIN KPL1_BREAST CORL311_LUNG NCIH28_PLEURA EW13_BONE NCIH2170_LUNG HEMCSS_BONE SUCCS1_SOFT_TISSUE 2313287_STOMACH KE37_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KYSE180_OESOPHAGUS SKM1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NB13_AUTONOMIC_GANGLIA NEC8_TESTIS SUPHD1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CCLFMELM0003T_SKIN RCCER_KIDNEY WM4235_SKIN NCIH854_LUNG NZM5_SKIN SNU899_UPPER_AERODIGESTIVE_TRACT NCIH2818_PLEURA NCIH250_LUNG MO_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE RERFGC1B_STOMACH 143B_BONE LB1047RCC_KIDNEY JEKO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MN60_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE L33_PANCREAS MDAPCA2B_PROSTATE EW8_BONE MM473_SKIN PSS008_BONE HCE4_OESOPHAGUS QGP1_PANCREAS MV411_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SKMG1_CENTRAL_NERVOUS_SYSTEM BV173_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE OVCAR4_OVARY LC1F_LUNG ONDA9_CENTRAL_NERVOUS_SYSTEM COLO678_LARGE_INTESTINE GCT_SOFT_TISSUE MERO83_PLEURA CCLF_MELM_0010_T HUO3N1_BONE NCIH1568_LUNG KMH2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HCC827_LUNG CHLA32_BONE NCIH2073_LUNG PEA1_OVARY SKRC52_KIDNEY GOS3_CENTRAL_NERVOUS_SYSTEM D245MG_CENTRAL_NERVOUS_SYSTEM NCIH1373_LUNG MSTO211H_PLEURA UO31_KIDNEY RERFLCMS_LUNG OPM1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KLE_ENDOMETRIUM SKLMS1_SOFT_TISSUE SUDHL16_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CW2_LARGE_INTESTINE MLMA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE OMM25_UVEA SCMCRM2_SOFT_TISSUE OCIMY7_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE ECC12_STOMACH MEC1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE GRANTA519_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE PCI30_UPPER_AERODIGESTIVE_TRACT MHHCALL4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KOSC2CL343_UPPER_AERODIGESTIVE_TRACT ZR7530_BREAST COLO783_SKIN RVH421_SKIN_FV1_RESISTANT HCC70_BREAST RERFLCFM_LUNG MTA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE D336MG_CENTRAL_NERVOUS_SYSTEM NCIH1836_LUNG SJRH30_SOFT_TISSUE JVE207_COLON HCA1_CERVIX SW156_KIDNEY UMHACC2A_UPPER_AERODIGESTIVE_TRACT EFE184_ENDOMETRIUM BT549_BREAST MERO14_PLEURA JMP1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH1993_LUNG JM1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SNU349_KIDNEY BOKU_CERVIX 639V_URINARY_TRACT RERFLCAI_LUNG M140325_SKIN NUGC4_STOMACH G415_BILIARY_TRACT MAPACHS77_PANCREAS CROAP2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE BT16_SOFT_TISSUE NZOV9_OVARY PEO4_OVARY MEL202_UVEA TK_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE ALLSIL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE PANC0213_PANCREAS ISTMES1_PLEURA CCLFUPGI0005T_STOMACH GIMEN_AUTONOMIC_GANGLIA GMEL_SKIN CTV1DM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HS939T_SKIN RCK8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH650_LUNG IMR5_AUTONOMIC_GANGLIA LB373MELD_SKIN BJAB_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KARPAS384_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MHHNB11_AUTONOMIC_GANGLIA RH28_SOFT_TISSUE HARA_LUNG C4I_CERVIX GCT27_TESTIS FARAGE_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE PECAPJ34CLONEC12_UPPER_AERODIGESTIVE_TRACT IGR37_SKIN KYSE50_OESOPHAGUS NCIH1688_LUNG MEL285_UVEA STM9101_SOFT_TISSUE SNU410_PANCREAS TALL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE RCCFG2_KIDNEY NCIH1581_LUNG CAL51_BREAST SW962_VULVA OCILY19_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE PCI6A_UPPER_AERODIGESTIVE_TRACT OCIAML5_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NRH-UPS1 NCIH2135_LUNG UPCISCC040_UPPER_AERODIGESTIVE_TRACT TUHR4TKB_KIDNEY WM3211_SKIN BGC823_STOMACH HB1119_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE DOHH2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MKN45_STOMACH SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KKU100_BILIARY_TRACT RPMI7951_SKIN LC1SQSF_LUNG GP2D_LARGE_INTESTINE SEMK2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH720_LUNG HS944T_SKIN CHP126_AUTONOMIC_GANGLIA NCIH835_LUNG TE11_OESOPHAGUS HCT15_LARGE_INTESTINE diff --git a/public/ccle_broad_2025/case_lists/cases_sequenced.txt b/public/ccle_broad_2025/case_lists/cases_sequenced.txt new file mode 100644 index 000000000..a9de85eae --- /dev/null +++ b/public/ccle_broad_2025/case_lists/cases_sequenced.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: ccle_broad_2025 +stable_id: ccle_broad_2025_sequenced +case_list_name: Samples with mutation data +case_list_description: Samples with mutation data (1970 samples) +case_list_category: all_cases_with_mutation_data +case_list_ids: ICC7_BILIARY_TRACT PC3_PROSTATE C99_LARGE_INTESTINE NGP_AUTONOMIC_GANGLIA HN_UPPER_AERODIGESTIVE_TRACT VMCUB1_URINARY_TRACT SNU977_LARGE_INTESTINE NCCIT_TESTIS RCCJF_KIDNEY MFHINO_SOFT_TISSUE HCC15_LUNG CHLA90_AUTONOMIC_GANGLIA HSKTC_OVARY SW13_ADRENAL_CORTEX NB1643_AUTONOMIC_GANGLIA COLO741_SKIN DLD1_LARGE_INTESTINE P32ISH_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SKBR5_BREAST ICC9_BILIARY_TRACT KYSE270_OESOPHAGUS SNU1196_BILIARY_TRACT CCLF_THYR_0009_T 1411H_TESTIS ISTSL2_LUNG EFO27_OVARY 697_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NB12_AUTONOMIC_GANGLIA SNU668_STOMACH NALM6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE D542MG_CENTRAL_NERVOUS_SYSTEM BC2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE LPS141_SOFT_TISSUE YSCCC_BILIARY_TRACT HPBALL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE JOPACA1_PANCREAS MHHES1_BONE SKLU1_LUNG HOS_BONE SKNFI_AUTONOMIC_GANGLIA HOP92_LUNG NCIH716_LARGE_INTESTINE EVSAT_BREAST VAL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HTK_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE JHOM1_OVARY NP5_CENTRAL_NERVOUS_SYSTEM SCC25_UPPER_AERODIGESTIVE_TRACT KIJK_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CCLF_THYR_0003_T TFK1_BILIARY_TRACT PSS131R_Osteosarcoma SEKI_SKIN CCLF_THYR_0001_T CME1_SOFT_TISSUE U178_CENTRAL_NERVOUS_SYSTEM SUDHL2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE OCIAML3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SCH_STOMACH HS936T_SKIN SA3_UPPER_AERODIGESTIVE_TRACT BE13_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE DOTC24510_CERVIX SUM52PE_BREAST SNU738_CENTRAL_NERVOUS_SYSTEM SUDHL5_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CP67MEL_SKIN GOTO_AUTONOMIC_GANGLIA CCLF_THYR_0004_T LN340_CENTRAL_NERVOUS_SYSTEM SNU251_OVARY 59M_OVARY DERL2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE VMM917_SKIN NCIH522_LUNG TE14_OESOPHAGUS PETA_SKIN COLO684_ENDOMETRIUM FEPD_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE JVE015_COLON HT1080_SOFT_TISSUE M07E_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SNU1076_UPPER_AERODIGESTIVE_TRACT SNU398_LIVER CCLF_RARE_0019_T CCLFUPGI0004T_STOMACH OC315_OVARY PANC0327_PANCREAS UMUC5_URINARY_TRACT LS411N_LARGE_INTESTINE NZM12_SKIN COGN305_AUTONOMIC_GANGLIA SHSY5Y_AUTONOMIC_GANGLIA TE8_OESOPHAGUS HDMB03_CENTRAL_NERVOUS_SYSTEM SNU1214_UPPER_AERODIGESTIVE_TRACT LCLC103H_LUNG UPCISCC074_UPPER_AERODIGESTIVE_TRACT NCIH1395_LUNG CCLFNEURO0006T_CENTRAL_NERVOUS_SYSTEM ECC2_BILIARY_TRACT TGBC18TKB_LARGE_INTESTINE NCC-LMS1-C1 HC1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KMS28BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HRT18_LARGE_INTESTINE SKMEL19_SKIN HSC39_STOMACH ICC18_BILIARY_TRACT UMUC7_URINARY_TRACT HMVII_SKIN HMY1_SKIN NCIH1048_LUNG CCLFMELM0005T_SKIN JHOS4_OVARY NAMALWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH2087_LUNG WM88_SKIN CCLF_THYR_0006_T U698M_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CGTHW1_THYROID JEG3_PLACENTA UMRC6_KIDNEY CORL279_LUNG PEER_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE DMS454_LUNG KYAE1_OESOPHAGUS SKNBE2_AUTONOMIC_GANGLIA HTCC3_THYROID OVMIU_OVARY PACADD188_PANCREAS ISTMEL1_SKIN 921_UVEA SKNMM_BRAIN_BONE DMS79_LUNG NZM7_SKIN CCLF_RARE_0010_T PECAPJ41CLONED2_UPPER_AERODIGESTIVE_TRACT C84_LARGE_INTESTINE HSQ89_UPPER_AERODIGESTIVE_TRACT NCIH1607_LUNG HCC461_LUNG 538MGBA_CENTRAL_NERVOUS_SYSTEM EMTOKA_ENDOMETRIUM NCIH2731_PLEURA KPNYS_AUTONOMIC_GANGLIA LN235_CENTRAL_NERVOUS_SYSTEM OS252_BONE CALU3_LUNG CAL33_UPPER_AERODIGESTIVE_TRACT NRH-GCT1 SLVL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HEC1A_ENDOMETRIUM NUGC3_STOMACH GSS_STOMACH OCILY18_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE DSH1_URINARY_TRACT UPCISCC114_UPPER_AERODIGESTIVE_TRACT SF126_CENTRAL_NERVOUS_SYSTEM SW954_CERVIX GB1_CENTRAL_NERVOUS_SYSTEM OCIMY5_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE PEDS005TSUSP_KIDNEY NCCSTCK140_STOMACH NCC-DFSP2-C1 NCC-UPS1-C1 KE97_STOMACH SNU182_LIVER NCIH2004RT_SOFT_TISSUE NB5_AUTONOMIC_GANGLIA S462_SOFT_TISSUE MO91_AML LN405_CENTRAL_NERVOUS_SYSTEM KARPAS1718_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CCLF_MELM_0011_T SNU601_STOMACH NCIH2803_PLEURA CHP212_AUTONOMIC_GANGLIA LOUNH91_LUNG HT29_LARGE_INTESTINE TC106_BONE PACADD159_PANCREAS LB831BLC_URINARY_TRACT MELHO_SKIN OACM51_OESOPHAGUS SET2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE LS1034_LARGE_INTESTINE NCIH660_PROSTATE EW16_BONE NCC-CDS1-X3-C1 ANGMCSS_CENTRAL_NERVOUS_SYSTEM T98G_CENTRAL_NERVOUS_SYSTEM CHLA06ATRT_SOFT_TISSUE SKNSH_AUTONOMIC_GANGLIA RPMI6666_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE RH41_SOFT_TISSUE TE617T_SOFT_TISSUE SKMEL30_SKIN MOLM14_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE ICC3_BILIARY_TRACT MOLT16_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE EB2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KMS20_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HCM-BROD-0489-C15 TTC709_SOFT_TISSUE KNS42_CENTRAL_NERVOUS_SYSTEM BXPC3_PANCREAS STS0421_SOFT_TISSUE MDAMB231_BREAST NCIH2405_LUNG P31FUJ_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE EW7_BONE HCC1195_LUNG NCIH2679_LUNG STS26T_SOFT_TISSUE OVISE_OVARY UPCISCC131_UPPER_AERODIGESTIVE_TRACT CORL32_LUNG CHLA9_BONE TERA1_TESTIS JMSU1_URINARY_TRACT CHLA258_BONE RT4_URINARY_TRACT SNU869_BILIARY_TRACT KY821_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE ML1_THYROID DU145_PROSTATE SKMEL2_SKIN SNUC4_LARGE_INTESTINE KYSE70_OESOPHAGUS HO1U1_UPPER_AERODIGESTIVE_TRACT BC1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE LCAM1_LUNG LB771HNC_UPPER_AERODIGESTIVE_TRACT SKRC31_KIDNEY LB996RCC_KIDNEY KASUMI3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE BICR31_UPPER_AERODIGESTIVE_TRACT HO1N1_UPPER_AERODIGESTIVE_TRACT KYM1_SOFT_TISSUE MM253_SKIN NCIH1793_LUNG EW24_BONE ISTMES2_PLEURA JMURTK2_SOFT_TISSUE TTC549_SOFT_TISSUE OCIM1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SLR24_KIDNEY ICC2_BILIARY_TRACT YD38_UPPER_AERODIGESTIVE_TRACT MZ7MEL_SKIN NCIH1838_LUNG AN3CA_ENDOMETRIUM SNU1327_LUNG COLO704_OVARY LC41_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CCLF_THYR_0005_T WM2664_SKIN MORCPR_LUNG NY_BONE OSC20_UPPER_AERODIGESTIVE_TRACT NCIH920_LUNG JVE367_COLON HEC265_ENDOMETRIUM AU565_BREAST SNU308_BILIARY_TRACT HCC1143_BREAST TGBC11TKB_STOMACH ACCMESO1_PLEURA JIH5_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE U2940_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KARPAS231_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE BICR10_UPPER_AERODIGESTIVE_TRACT MUTZ5_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE G401_SOFT_TISSUE SKGI_ENDOMETRIUM UT7_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE VACO-432 SNU254_LARGE_INTESTINE TE4_OESOPHAGUS BICR3_LUNG SNU119_OVARY 1618K_TESTIS A375_SKIN_CJ1_RESISTANT LAN6_AUTONOMIC_GANGLIA SSP25_BILIARY_TRACT MM383_SKIN PL4_PANCREAS LOVO_LARGE_INTESTINE T3M3_PLACENTA KMLS1_SOFT_TISSUE NB4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE OVMANA_OVARY CMS_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE AML193_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KPNRTBM1_AUTONOMIC_GANGLIA DV90_LUNG OCILY132_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SUM185PE_BREAST SH10TC_STOMACH U138MG_CENTRAL_NERVOUS_SYSTEM MAC2A_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE OPM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE 170MGBA_CENTRAL_NERVOUS_SYSTEM M980513_SKIN NCIH1882_LUNG P30OHK_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE ROS50_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE GMS10_CENTRAL_NERVOUS_SYSTEM SAT_UPPER_AERODIGESTIVE_TRACT NCCUPS2C1_SOFT_TISSUE GT3TKB_STOMACH SHI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE TUHR14TKB_KIDNEY SUM102PT_BREAST SNU878_LIVER GRST_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SKUT1_SOFT_TISSUE FU97_STOMACH PACADD165_PANCREAS SUPB15_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE VMRCRCZ_KIDNEY ZR751_BREAST UPMD1_Melanoma_Eye TE9_OESOPHAGUS UPCISCC116_UPPER_AERODIGESTIVE_TRACT AGS_STOMACH KGN_OVARY KASUMI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE TCYIK_CERVIX JAR_PLACENTA SNU5_STOMACH RAMOS_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NZM1_SKIN SNU267_KIDNEY DOV13_OVARY SW756_CERVIX CCLF_CORE_0002_T MM426_SKIN NALM16_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE RH4_SOFT_TISSUE RPMI2650_UPPER_AERODIGESTIVE_TRACT TTC642_SOFT_TISSUE NCIH2452_PLEURA IPM-BO-053L SNU886_LIVER NCIH520_LUNG NCIH2126_LUNG SUM229PE_BREAST MOLM6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE LN215_CENTRAL_NERVOUS_SYSTEM DOGUM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE Z181_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CCLF_RARE_0020_T LN382_CENTRAL_NERVOUS_SYSTEM NCIH1385_LUNG 1321N1_CENTRAL_NERVOUS_SYSTEM AZ521_SMALL_INTESTINE SKBR7_BREAST A388_SKIN IPM-BO-053R U118MG_CENTRAL_NERVOUS_SYSTEM OZ_BILIARY_TRACT BECKER_CENTRAL_NERVOUS_SYSTEM CHAGOK1_LUNG CJM_SKIN GB2_BILIARY_TRACT SW872_SOFT_TISSUE CORL26_LUNG SKGT2_STOMACH HCC515_LUNG FTC238_THYROID C396_BONE YD8_UPPER_AERODIGESTIVE_TRACT CCLF_MELM_0004_T MCF7_BREAST SUM44PE_BREAST NCIH196_LUNG CCSW1_BILIARY_TRACT NCIH774_LUNG NP2_CENTRAL_NERVOUS_SYSTEM MEC2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE WM983B_SKIN HCC56_LARGE_INTESTINE T84_LARGE_INTESTINE SNU719_STOMACH SKMEL24_SKIN CCLF_MELM_0006_T OV7_OVARY PLB985_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE ICC12_BILIARY_TRACT NCIH2085_LUNG NCIH929_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HCC827GR5_LUNG RAMOS2G64C10_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE JK1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE RPMI8866_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE OCIP5X_OVARY KMS27_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE ZR75B_BREAST HUO9_BONE K5_THYROID U251MGDM_Brain KARPAS1106P_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE RDES_BONE CORL88_LUNG NZM40_SKIN SUDHL10_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE OCIAML2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH1930_LUNG LK2_LUNG CAL62_THYROID MUTZ3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE RF48_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MOGGCCM_CENTRAL_NERVOUS_SYSTEM NCIH1573_LUNG LO68_LUNG HEPG2_LIVER NCIH2347_LUNG COLO800_SKIN SNU1041_UPPER_AERODIGESTIVE_TRACT HCC364_LUNG SKMEL3_SKIN HT144_SKIN_FV1_RESISTANT OVCA433_OVARY UMRC7_KIDNEY DIPG007_CENTRAL_NERVOUS_SYSTEM MM127_SKIN NCIH358_LUNG UPCISCC200_UPPER_AERODIGESTIVE_TRACT SEM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE ABC1_LUNG SUDHL8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SNU423_LIVER A498_KIDNEY 21MT2_BREAST NCCES1C1_BONE NCIH1304_LUNG CAR1_LARGE_INTESTINE HCC2814_LUNG RMGI_OVARY CHSA8926_BONE TK6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH82_LUNG CHLA218_BONE DB_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MDAMB175VII_BREAST BCP1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KATOIII_STOMACH LN443_CENTRAL_NERVOUS_SYSTEM MAMEL46_SKIN TGBC24TKB_BILIARY_TRACT OMM1_UVEA JHH4_LIVER SKOV3_OVARY NCC010_KIDNEY CAL148_BREAST KP363T_COLON ONS76_CENTRAL_NERVOUS_SYSTEM HCC78_LUNG DBTRG05MG_CENTRAL_NERVOUS_SYSTEM NUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE LU165_LUNG CHRF-288-11 SW1271_LUNG SF767_CENTRAL_NERVOUS_SYSTEM HT144_SKIN NCC-SS2-C1 SNU626_CENTRAL_NERVOUS_SYSTEM U2OS_BONE JHH7_LIVER BCPAP_THYROID LAMA84_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE GA10_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCCPRMS1C1_Sarcoma BDCM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CAL29_URINARY_TRACT OCIM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH1092_LUNG SNU1040_LARGE_INTESTINE NMCG1_CENTRAL_NERVOUS_SYSTEM WM1799_SKIN TTC442_SOFT_TISSUE PANFR0402 LS513_LARGE_INTESTINE CCLF_RARE_0025_T A3KAW_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MESOV_OVARY EM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SKES1_BONE HEC59_ENDOMETRIUM LPS510_SOFT_TISSUE HUT78_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HOKUG_CERVIX PC9_LUNG JVE253_COLON ESO51_OESOPHAGUS NUDUL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SUM1315MO2_BREAST CHLA10_BONE KON_UPPER_AERODIGESTIVE_TRACT LN464_CENTRAL_NERVOUS_SYSTEM SNU2292_LUNG BALL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE K029AX_SKIN OVTOKO_OVARY RCCMF_KIDNEY MEL270_UVEA SNU1066_UPPER_AERODIGESTIVE_TRACT NO36_LUNG BHY_UPPER_AERODIGESTIVE_TRACT HKGZCC_BILIARY_TRACT OV17R_OVARY JHUEM1_ENDOMETRIUM NCIH1703_LUNG TGBC1TKB_BILIARY_TRACT NO10_CENTRAL_NERVOUS_SYSTEM H4_CENTRAL_NERVOUS_SYSTEM SNUC5_LARGE_INTESTINE ASPS-KY UMUC11_URINARY_TRACT BC3C_URINARY_TRACT CCLF_RARE_0021_T MDAMB453_BREAST HCC1954_BREAST MPNST724_SOFT_TISSUE NB69_AUTONOMIC_GANGLIA ICC15_BILIARY_TRACT CFPAC1_PANCREAS NCC021_KIDNEY PSS141_BONE CCLF_PEDS_0020_T MJ_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HS860T_BONE UACC257_SKIN TE1_OESOPHAGUS 1777NRPMET_TESTIS NCIH508_LARGE_INTESTINE SNU739_LIVER SIHA_CERVIX NCIH2795_PLEURA OV56_OVARY LAN2_AUTONOMIC_GANGLIA GP5D_LARGE_INTESTINE KALS1_CENTRAL_NERVOUS_SYSTEM CL14_LARGE_INTESTINE HCC1008_BREAST LPS6_SOFT_TISSUE SW620_LARGE_INTESTINE NCIH727_LUNG LI7_LIVER LS123_LARGE_INTESTINE LNZ308_CENTRAL_NERVOUS_SYSTEM PGA1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE VMRCRCW_KIDNEY HUH7_LIVER SNU840_OVARY NCIH1623_LUNG H357_UPPER_AERODIGESTIVE_TRACT PC3JPC3_LUNG UPCISCC029A_UPPER_AERODIGESTIVE_TRACT CCLFOVPA0001T_OVARY PSN1_PANCREAS MONOMAC6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE TASK1_CENTRAL_NERVOUS_SYSTEM UACC3199_BREAST HEC108_ENDOMETRIUM MERO48A_PLEURA LN229_CENTRAL_NERVOUS_SYSTEM HEC1B_ENDOMETRIUM D425_CENTRAL_NERVOUS_SYSTEM NCIH64_LUNG SYO1_SOFT_TISSUE NOMO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MIAPACA2_PANCREAS WM1552C_SKIN MC116_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH1666_LUNG HCC1419_BREAST NCIH187_LUNG COLO668_LUNG NCIH1781_LUNG NCIH2882_LUNG TC71_BONE MP41_UVEA MM415_SKIN MM537_SKIN TT2609C02_THYROID COLO829_SKIN PC14_LUNG SCCH196_SOFT_TISSUE NCIH322_LUNG TOLEDO_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE ETK1_BILIARY_TRACT UMUC13_URINARY_TRACT NCIH2029_LUNG PLCPRF5_LIVER UW228_CENTRAL_NERVOUS_SYSTEM C80_LARGE_INTESTINE U2973_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE A673STAG2KO16_ENGINEERED SW837_LARGE_INTESTINE CAL27_UPPER_AERODIGESTIVE_TRACT SW684_SOFT_TISSUE TT1TKB_LARGE_INTESTINE EFM192A_BREAST NKL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE M059J_CENTRAL_NERVOUS_SYSTEM UACC812_BREAST L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE A673STAG2KO45_ENGINEERED HEC116_ENDOMETRIUM JHH6_LIVER ES2_OVARY SNU2535_LUNG IM95_STOMACH KARPAS299_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SNU478_BILIARY_TRACT CCLF_UPGI_0011_T LOXIMVI_SKIN NCIH1792_LUNG SKMEL31_SKIN UPMD2 SLR20_KIDNEY LNCAPCLONEFGC_PROSTATE SKMES1_LUNG SMSCTR_SOFT_TISSUE EWS834_BONE C10_LARGE_INTESTINE 833KE_TESTIS NCIH740_LUNG BL2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE K562_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH378_LUNG NCO2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE JHU022_UPPER_AERODIGESTIVE_TRACT CCLF_HNSC_0001_T ULA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE LP1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MUTZ8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE H157_UPPER_AERODIGESTIVE_TRACT OUMS27_BONE KMS12BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HEP3B217_LIVER SNU213_PANCREAS COLO792_SKIN FLO1_OESOPHAGUS UMRC2_KIDNEY SF172_CENTRAL_NERVOUS_SYSTEM CCLFPEDS0002T_KIDNEY CCLF_HNSC_0003_T LC1SQ_LUNG HCM-BROD-0477-C16 WSU-AML_PROSTATE 94T778_SOFT_TISSUE REH_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH2373_PLEURA SNUC2B_LARGE_INTESTINE KML1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE ES7_BONE HH_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SCC3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KNS60_CENTRAL_NERVOUS_SYSTEM RAJI_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KYSE450_OESOPHAGUS OSC19_UPPER_AERODIGESTIVE_TRACT HMC18_BREAST HT55_LARGE_INTESTINE LU134A_LUNG A375_SKIN_CJ2_RESISTANT 8505C_THYROID CCLF_PANC_0019_T KMS34_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HTST_EMBRYONAL 42MGBA_CENTRAL_NERVOUS_SYSTEM PK8_PANCREAS DG75_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE WM793_SKIN HS746T_STOMACH ACHN_KIDNEY SCCOHT1_OVARY KPMRTRY_SOFT_TISSUE OAW28_OVARY TCC466_BONE UCSFOT1109_UPPER_AERODIGESTIVE_TRACT NCIN87_STOMACH KARPAS620_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HEL9217_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH1651_LUNG HCC827GR_LUNG YD15_SALIVARY_GLAND NCC-MPNST2-C1 OVCA420_OVARY SW626_LARGE_INTESTINE TL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE L1236_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE AM38_CENTRAL_NERVOUS_SYSTEM MON_SOFT_TISSUE MALME3M_SKIN LS180_LARGE_INTESTINE SBC1_LUNG SAOS2_BONE DL_SOFT_TISSUE NIHOVCAR3_OVARY HSSCH2_CENTRAL_NERVOUS_SYSTEM NTERA2CLD1_TESTIS UPCISCC072_UPPER_AERODIGESTIVE_TRACT MCAS_OVARY NCIH747_LARGE_INTESTINE KCIMOH1_PANCREAS COLO201_LARGE_INTESTINE MOGGUVW_CENTRAL_NERVOUS_SYSTEM NCIH345_LUNG HCC1833_LUNG CAL39_VULVA D423MG_CENTRAL_NERVOUS_SYSTEM Z138_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH2869_PLEURA DEL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE UPCISCC172_UPPER_AERODIGESTIVE_TRACT NCIH684_LARGE_INTESTINE ONE58_LUNG HT144_SKIN_FV3_RESISTANT HS695T_SKIN T3M10_LUNG SNU81_LARGE_INTESTINE NCC-MPNST1-C1 CCLF_UPGI_0012_T MFE296_ENDOMETRIUM EMCBAC2_LUNG HCC95_LUNG P3HR1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE EJ1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE C33A_CERVIX NCIH2172_LUNG NCIH2196_LUNG PCI38_UPPER_AERODIGESTIVE_TRACT NCIH446_LUNG A431_SKIN DMS153_LUNG KMS11_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE A375_SKIN_CJ3_RESISTANT COLO849_SKIN SC1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE M040416_SKIN CCLF_NEURO_0046_T NCIH1819_LUNG 786O_KIDNEY RHJT_SOFT_TISSUE TGBC52TKB_BILIARY_TRACT GBM001_CENTRAL_NERVOUS_SYSTEM CCLFUPGI0009T_GASTRIC CCLF_RARE_0009_T GCIY_STOMACH MM603_SKIN EFM19_BREAST OCILY3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KKU055_BILIARY_TRACT UMUC3_URINARY_TRACT SW527_LARGE_INTESTINE CCLFMELM0001T_SKIN KINGS1_CENTRAL_NERVOUS_SYSTEM HUPT3_PANCREAS HSC1_SKIN T3M11_LUNG TN2_AUTONOMIC_GANGLIA KNS62_LUNG SKGT4_OESOPHAGUS MDAMB361_BREAST JVE187_COLON KASUMI2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CCLFPEDS0003T_SOFT_TISSUE C75_LARGE_INTESTINE SIGM5_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH2291_LUNG PFEIFFER_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE PK1_PANCREAS LASCPC01_Prostate SKMEL28_SKIN JIMT1_BREAST KMH2_THYROID KYO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MP46_UVEA NALM1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE GUMBUS_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE DKMG_CENTRAL_NERVOUS_SYSTEM NRH-MFS3 SJSA1_BONE ICC137_BILIARY_TRACT SCABER_URINARY_TRACT NCIH1755_LUNG CCLF_HNSC_0004_T MOT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE COLO794_SKIN HL60_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MINO_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE TANOUE_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE OANC1_OESOPHAGUS IGR39_SKIN CHLA15_AUTONOMIC_GANGLIA NKM1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CTV1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE JHU029_UPPER_AERODIGESTIVE_TRACT BB49HNC_UPPER_AERODIGESTIVE_TRACT SQ1_LUNG TMK1_STOMACH NCIH322M_LUNG HUT102_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SKMM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE PANFR0420 RT11284_URINARY_TRACT ASPC1_PANCREAS HKBMM_CENTRAL_NERVOUS_SYSTEM TUHR10TKB_KIDNEY RPMI8226_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH1105_LUNG HEC151_ENDOMETRIUM CAL120_BREAST MERO41_PLEURA CCLF_HEME_0004_T OVK18_OVARY KMOE2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE 93T449_SOFT_TISSUE SW1463_LARGE_INTESTINE WERIRB1_AUTONOMIC_GANGLIA CAKI1_KIDNEY KMS21BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MPP89_PLEURA HSSYII_LUNG COLO205_LARGE_INTESTINE NCIH524_LUNG NCIH2122_LUNG TE10_OESOPHAGUS SCLC22H_LUNG MOLM1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MERO82_PLEURA HUH1_LIVER RCHACV_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KHM1B_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SNU8_OVARY SW1417_LARGE_INTESTINE 8305C_THYROID CCLF_UPGI_0052_T SKNDZ_AUTONOMIC_GANGLIA PATU8902_PANCREAS HSC3_UPPER_AERODIGESTIVE_TRACT ES8_BONE M00921_SKIN MAVER1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE A673STAG2NT23_ENGINEERED OCILY10_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE EB1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE GLC82_LUNG DMS273_LUNG KURAMOCHI_OVARY HS852T_SKIN COLO680N_OESOPHAGUS D384_CENTRAL_NERVOUS_SYSTEM CCLFPEDS0026T_KIDNEY RERFLCAD2_LUNG NH12_AUTONOMIC_GANGLIA HS611T_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KMS26_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE BICR22_UPPER_AERODIGESTIVE_TRACT SNU216_STOMACH NCIH3122_LUNG MESSA_SOFT_TISSUE A704_KIDNEY JVM3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SS1A_SOFT_TISSUE HMCB_SKIN KNS81FD_CENTRAL_NERVOUS_SYSTEM HCC2218_BREAST OE19_OESOPHAGUS MRKNU1_BREAST BEN_LUNG UMC11_LUNG TE5_OESOPHAGUS SNU283_LARGE_INTESTINE CHL1DM_SKIN NCIH2009_LUNG S117_THYROID HUG1N_STOMACH MDST8_LARGE_INTESTINE MERO95_PLEURA RH18_SOFT_TISSUE D556_CENTRAL_NERVOUS_SYSTEM SW1710_URINARY_TRACT CORL23_LUNG K2_SKIN PANC0813_PANCREAS MY_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE ETCC016_LUNG A253_SALIVARY_GLAND CORL105_LUNG NCC-MPNST3-X2-C1 PACADD137_PANCREAS EOL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE WM115_SKIN INA6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NB17_AUTONOMIC_GANGLIA A427_LUNG SNU46_UPPER_AERODIGESTIVE_TRACT LOUCY_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SW579_THYROID MM370_SKIN ONDA7_CENTRAL_NERVOUS_SYSTEM OCUG1_BILIARY_TRACT D263MG_CENTRAL_NERVOUS_SYSTEM SUSA_TESTIS MOLT13_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KU1919_URINARY_TRACT GSU_STOMACH 451LU_SKIN PL21_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HT3_CERVIX SUM225CWN_BREAST CW9019_SOFT_TISSUE NCIH2106_LUNG NCIH1435_LUNG IS076P_OESOPHAGUS ICC8_BILIARY_TRACT HCC2185_BREAST CA46_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NZM30_SKIN 253JBV_URINARY_TRACT TB096_BRAIN COGE352_BONE MG63_BONE SW1088_CENTRAL_NERVOUS_SYSTEM SW48_LARGE_INTESTINE FUOV1_OVARY HCC1569_BREAST IMR32_AUTONOMIC_GANGLIA SUM159PT_BREAST GAMG_CENTRAL_NERVOUS_SYSTEM HS683_CENTRAL_NERVOUS_SYSTEM SNU1033_LARGE_INTESTINE G402_SOFT_TISSUE JHOS3_OVARY SNU201_CENTRAL_NERVOUS_SYSTEM IGR1_SKIN NK92MI_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE TC138_BONE HDLM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH526_LUNG SN12C_KIDNEY PA1_OVARY COLO320_LARGE_INTESTINE GRM_SKIN NH6_AUTONOMIC_GANGLIA ESS1_ENDOMETRIUM SNU475_LIVER UACC893_BREAST MERO25_PLEURA CHLA99_BONE OCILY12_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH647_LUNG NP3_CENTRAL_NERVOUS_SYSTEM BL41_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NZM3_SKIN SKMEL5_SKIN EJM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NALM19_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CAOV4_OVARY NCC-MFS1-C1 DOK_UPPER_AERODIGESTIVE_TRACT CASKI_CERVIX MDAMB415_BREAST HOTHC_THYROID PANC0203_PANCREAS D247MG_CENTRAL_NERVOUS_SYSTEM IHH4_THYROID CCLF_NEURO_0005_T NP8_CENTRAL_NERVOUS_SYSTEM C3A_LIVER NCIH810_LUNG MEG01_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE COV434_OVARY CCRFCEM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE PECAPJ49_UPPER_AERODIGESTIVE_TRACT LMSU_STOMACH SW900_LUNG IOMMLEE_CENTRAL_NERVOUS_SYSTEM SNU1460_LARGE_INTESTINE HMMME_LUNG NCIH2030_LUNG F5_CENTRAL_NERVOUS_SYSTEM MELJUSO_SKIN HA7RCC_KIDNEY TE441T_SOFT_TISSUE WAOSEL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH596_LUNG A4FUK_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH2171_LUNG NCIH1355_LUNG BC3_PLEURA COV413A_OVARY NCIH3255_LUNG KKU213_BILIARY_TRACT MM100511 U2946_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SLR21_KIDNEY OE33_OESOPHAGUS KYSE140_OESOPHAGUS NCIH295R_AUTONOMIC_GANGLIA 1156QE8_TESTIS RS411_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CTB1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SISO_CERVIX BCK4 NB7_AUTONOMIC_GANGLIA HCC4006_LUNG MOLM13_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE LNZTA3WT4_CENTRAL_NERVOUS_SYSTEM CI34601_CENTRAL_NERVOUS_SYSTEM DL221_SOFT_TISSUE ONDA8_CENTRAL_NERVOUS_SYSTEM SH2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE JHH5_LIVER KMM1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH2110_LUNG NBTU110_AUTONOMIC_GANGLIA CCLF_MELM_0038_T CADOES1_BONE HCC2450_LUNG OCIAML4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HCC1897_LUNG JHUEM3_ENDOMETRIUM SKGIIIA_CERVIX SF539_CENTRAL_NERVOUS_SYSTEM SNU1406_COLON NCIH889_LUNG UMUC6_URINARY_TRACT HCT116_LARGE_INTESTINE CCLF_HEME_0001_T LU138_LUNG MKN1_STOMACH NCIH1734_LUNG UMUC16_URINARY_TRACT HCC33_LUNG MM160113_SKIN 5637_URINARY_TRACT MFE280_ENDOMETRIUM HUPT4_PANCREAS HUCCT1_BILIARY_TRACT HEC6_ENDOMETRIUM KMRC20_KIDNEY MM576_SKIN HCC2108_LUNG BICR18_UPPER_AERODIGESTIVE_TRACT MONOMAC1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CHL1_SKIN HSC2_UPPER_AERODIGESTIVE_TRACT KCL22_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE JHU011_UPPER_AERODIGESTIVE_TRACT KP1N_PANCREAS HSC4_UPPER_AERODIGESTIVE_TRACT BONNA12_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HT1376_URINARY_TRACT HT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE PSS112_BONE OVCAR5_OVARY MYLA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE RCC10RGB_KIDNEY NCIH1618_LUNG P12ICHIKAWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE LN428_CENTRAL_NERVOUS_SYSTEM CL34_LARGE_INTESTINE DMS53_LUNG MDAMB330_BREAST TOV112D_OVARY CI_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE PACADD119_PANCREAS SW1353_BONE PACADD161_PANCREAS SW1990_PANCREAS HCC366_LUNG CCLFPEDS0022T_KIDNEY EFO21_OVARY CMLT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MCC26_SKIN KARPAS45_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SNUC1_LARGE_INTESTINE EW1_BONE EN_ENDOMETRIUM DANG_PANCREAS MKN28_STOMACH JSC1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE DL40_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE DETROIT562_UPPER_AERODIGESTIVE_TRACT KYSE30_OESOPHAGUS J82_URINARY_TRACT BB65RCC_KIDNEY P2URK562_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HEY_OVARY SR786_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SW1783_CENTRAL_NERVOUS_SYSTEM HLC1_LUNG HCC44_LUNG WILL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE GI1_CENTRAL_NERVOUS_SYSTEM MDAMB436_BREAST A673_BONE EBC1_LUNG NOS1_BONE SKGII_ENDOMETRIUM CCLFPEDS0010T_BONE SNU407_LARGE_INTESTINE MZ1PC_PANCREAS C242_BONE MHHCALL3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SNU16_STOMACH HCC2157_BREAST KE39_STOMACH HPAC_PANCREAS PANC1005_PANCREAS UACC3133_BREAST MOLP2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE COLO775_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE BHT101_THYROID SNUC2A_LARGE_INTESTINE MM1S_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KMBC2_URINARY_TRACT GRANTA452_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HCM-BROD-0098-C15 UOK101_KIDNEY MS751_CERVIX LPS27_SOFT_TISSUE KMS18_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CCLF_UPGI_0041_T KELLY_AUTONOMIC_GANGLIA EW12_BONE DND41_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HS294T_SKIN SUPM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH2887_LUNG LU143_LUNG UPMM2 UPMM3 OCIC5X_OVARY CCLF_UPGI_0068_T PK59_PANCREAS HCC202_BREAST MFE319_ENDOMETRIUM PANC0403_PANCREAS MOLT4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE OCUBM_BREAST CCC5_BILIARY_TRACT NCIH1155_LUNG OE21_OESOPHAGUS SNB19_CENTRAL_NERVOUS_SYSTEM HEC1_ENDOMETRIUM RI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HCC1500_BREAST F36P_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE BIN67_OVARY HCC1806_BREAST CALU1_LUNG L82_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE OCUM1_STOMACH TO14_OVARY MKL1_SKIN KMS28PE_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CCK81_LARGE_INTESTINE TR146_UPPER_AERODIGESTIVE_TRACT FADU_UPPER_AERODIGESTIVE_TRACT HLE_LIVER HCC3153_BREAST JVM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH1770_LUNG A1207_CENTRAL_NERVOUS_SYSTEM PSS089_BONE NRH-LMS1 NRH-LMS2 NCIH748_LUNG WAHT_LUNG NH93T ECGI10_OESOPHAGUS MM485_SKIN IPC298_SKIN 8MGBA_CENTRAL_NERVOUS_SYSTEM T3M5_THYROID KMRC1_KIDNEY NCIH1184_LUNG OAW42_OVARY D566MG_CENTRAL_NERVOUS_SYSTEM CHLA136_AUTONOMIC_GANGLIA T24_URINARY_TRACT NOZ_LIVER NCIH460_LUNG KHYG_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE H513_LUNG JHUEM7_ENDOMETRIUM UCH2_BONE TC32_BONE HPAFII_PANCREAS SNU1750_STOMACH D392MG_CENTRAL_NERVOUS_SYSTEM UCSDAML1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE JURKAT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MERO84_PLEURA NCIH2228_LUNG SUMB002_CENTRAL_NERVOUS_SYSTEM NCIH1915_LUNG NZM11_SKIN CCLF_HNSC_0002_T GDM1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE BT20_BREAST OVKATE_OVARY EW18_BONE C393_BONE TC205_BONE CCLFPEDS0014T1_AUTONOMIC_GANGLIA HLF_LIVER JJN3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HEL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SUDHL4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HAL01_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE COV362_OVARY SNGM_ENDOMETRIUM 127399_SOFT_TISSUE UMRC3_KIDNEY SW948_LARGE_INTESTINE NCIH292_LUNG COV318_OVARY WSUDLCL2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KASUMI6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE JVE528_COLON PL45_PANCREAS M059K_CENTRAL_NERVOUS_SYSTEM HSOS1_BONE SHP77_LUNG NCIH2342_LUNG 21NT_BREAST BICR78_UPPER_AERODIGESTIVE_TRACT TE15_OESOPHAGUS LU65_LUNG DOGKIT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MM386_SKIN RL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CHLA57_BONE NCIH69_LUNG SNU387_LIVER VP229_BREAST T3M4_PANCREAS NCIH2286_LUNG PANC0504_PANCREAS RH30_SOFT_TISSUE LC2AD_LUNG SKHEP1_LIVER H413_UPPER_AERODIGESTIVE_TRACT OC314_OVARY SNU685_ENDOMETRIUM M1203273_SKIN VP267_BREAST HS578T_BREAST WM3772F_EYE NCIH146_LUNG SU8686_PANCREAS SNU2372_BREAST MAMEL27_SKIN MM28_UVEA H103_UPPER_AERODIGESTIVE_TRACT CAKI2_KIDNEY 95T1000_SOFT_TISSUE HCC1187_BREAST YUHOIN0650_Melanoma_Skin SBC3_LUNG KYSE520_OESOPHAGUS HELA_CERVIX NCIH1341_LUNG COLO818_SKIN TCCSUP_URINARY_TRACT UACC62_SKIN MFM223_BREAST CCLFMELM0002T_SKIN CAL851_BREAST CMK86_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE UPCISCC090_UPPER_AERODIGESTIVE_TRACT HCC1359_LUNG TM31_CENTRAL_NERVOUS_SYSTEM BE2M17_AUTONOMIC_GANGLIA JHUEM2_ENDOMETRIUM CCLFPEDS0008T_SOFT_TISSUE NCIH23_LUNG RMSYM_SOFT_TISSUE 769P_KIDNEY CAPAN1_PANCREAS DU4475_BREAST MS1_SKIN SNU324_PANCREAS PATU8988T_PANCREAS NCIH1693_LUNG KD_SOFT_TISSUE CCLF_PEDS_0043_T NCIH2227_LUNG ICC106_BILIARY_TRACT DMS114_LUNG CCLF_NPDX_0008_T YD10B_UPPER_AERODIGESTIVE_TRACT HCC1599_BREAST SNU175_LARGE_INTESTINE LPS853_SOFT_TISSUE SNU620_STOMACH PANFR0069 EW22_BONE UACC62_SKIN_CJ1_RESISTANT MMACSF_SKIN MOTN1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE UMUC4_URINARY_TRACT SW780_URINARY_TRACT JHU028_LUNG PSS050_BONE LXF289_LUNG PANFR0233 DJM1_SKIN MCC142_SKIN NCIH1975_LUNG PECAPJ15_UPPER_AERODIGESTIVE_TRACT Y79_AUTONOMIC_GANGLIA TT_OESOPHAGUS HS856T_SOFT_TISSUE HDMYZ_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE LPS067_SOFT_TISSUE HUTU80_SMALL_INTESTINE SNU466_CENTRAL_NERVOUS_SYSTEM L428_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HUH6_LIVER MOLM16_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE UWB1289_OVARY RO82W1_THYROID NCIH2722_PLEURA D502MG_CENTRAL_NERVOUS_SYSTEM HEC251_ENDOMETRIUM SKNO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HCC1438_LUNG CORL47_LUNG NCIH2444_LUNG MDAMB134VI_BREAST 600MPE_BREAST SW403_LARGE_INTESTINE PCI15A_UPPER_AERODIGESTIVE_TRACT HDQP1_BREAST UMUC10_URINARY_TRACT RL952_ENDOMETRIUM ONCODG1_OVARY SUDHL6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE IALM_LUNG IS076A_OESOPHAGUS SNU761_LIVER WSUNHL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE JHESOAD1_OESOPHAGUS CBAGPN_BONE H376_UPPER_AERODIGESTIVE_TRACT NZM43_SKIN NB14_AUTONOMIC_GANGLIA CAL54_KIDNEY FTC133_THYROID ST486_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NMB_AUTONOMIC_GANGLIA TGW_AUTONOMIC_GANGLIA SLR26_KIDNEY KPNYN_AUTONOMIC_GANGLIA ACN_AUTONOMIC_GANGLIA KLM1_PANCREAS RVH421_SKIN SKNAS_AUTONOMIC_GANGLIA SCC15_UPPER_AERODIGESTIVE_TRACT CCLFTHYR0008T_THYROID FKH1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HOP62_LUNG SNU449_LIVER CAS1_CENTRAL_NERVOUS_SYSTEM CCFSTTG1_CENTRAL_NERVOUS_SYSTEM MEL290_UVEA CCLF_UPGI_0085_T D341MED_CENTRAL_NERVOUS_SYSTEM PANC1_PANCREAS JHOS2_OVARY MMAC_SKIN ICC108_BILIARY_TRACT SKN_ENDOMETRIUM TKKK_BILIARY_TRACT NH84T NCIH1563_LUNG U266B1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE LU99_LUNG HAP1_ENGINEERED HHUA_ENDOMETRIUM SW480_LARGE_INTESTINE DAOY_CENTRAL_NERVOUS_SYSTEM CORL24_LUNG TYKNU_OVARY CCLF_RARE_0022_T ISHIKAWAHERAKLIO02ER_ENDOMETRIUM NCIH510_LUNG MDAMB157_BREAST LN319_CENTRAL_NERVOUS_SYSTEM RCCAB_KIDNEY COGN278_AUTONOMIC_GANGLIA EGI1_BILIARY_TRACT EMCBAC1_LUNG MM466_SKIN JL1_PLEURA HCC2429_LUNG TERA2_TESTIS SKCO1_LARGE_INTESTINE KYSE510_OESOPHAGUS A673STAG2NT14_ENGINEERED KYSE150_OESOPHAGUS SNU482_KIDNEY 253J_URINARY_TRACT NCC-CDS1-X1-C1 ALLPO_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCCOS1X2C1_BONE VMRCLCP_LUNG ICC6_BILIARY_TRACT MCIXC_BONE D458_CENTRAL_NERVOUS_SYSTEM CMK_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CHSA0011_BONE SNU520_STOMACH ECC4_LARGE_INTESTINE MKN7_STOMACH H3118_UPPER_AERODIGESTIVE_TRACT KP2_PANCREAS EW11_BONE ESO26_OESOPHAGUS ATN1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CCLFPEDS0007T_BONE HCC1937_BREAST SNB75_CENTRAL_NERVOUS_SYSTEM SW982_SOFT_TISSUE KP4_PANCREAS CACO2_LARGE_INTESTINE WM35_SKIN ES5_BONE MACLS2_BREAST YMB1E_BREAST JVE127_COLON IPM-BO-056 SAS_UPPER_AERODIGESTIVE_TRACT NCIH209_LUNG BICR16_UPPER_AERODIGESTIVE_TRACT C2BBE1_LARGE_INTESTINE HT144_SKIN_FV2_RESISTANT HCSC1_CERVIX HGC27_STOMACH PATU8988S_PANCREAS HUNS1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HTMMT_ENDOMETRIUM RERFLCKJ_LUNG OSRC2_KIDNEY ICC16_BILIARY_TRACT YUSEEP-M-16-3517 SMZ1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE TOV21G_OVARY ES6_BONE RCCJW_KIDNEY TE12_OESOPHAGUS NCIH838_LUNG KMRC2_KIDNEY NCIH847_LUNG UPCISCC099_UPPER_AERODIGESTIVE_TRACT SKNMC_BONE HCC2279_LUNG AMO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE EKVX_LUNG C125PM_LARGE_INTESTINE CHP134_AUTONOMIC_GANGLIA NCCDCS1C1_BONE LU99A_LUNG HCC2935_LUNG PCM6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HSC5_SKIN ASH3_THYROID TOM1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE WSUFSCCL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SCC4_UPPER_AERODIGESTIVE_TRACT DAUDI_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE YKG1_CENTRAL_NERVOUS_SYSTEM SNU1077_ENDOMETRIUM HCC1171_LUNG NCIH157DM_LUNG OSU-Des23 KNS81_CENTRAL_NERVOUS_SYSTEM KU812_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE EB3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE U937_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE VCAP_PROSTATE CCLF_UPGI_0101_T BL70_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE A101D_SKIN KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE UMUC14_URINARY_TRACT RH36_SOFT_TISSUE CCLF_UPGI_0036_T CAL78_BONE KM12_LARGE_INTESTINE CS1_BONE A204_SOFT_TISSUE KS1_CENTRAL_NERVOUS_SYSTEM MZ2MEL_SKIN COGAR359_SOFT_TISSUE LN18_CENTRAL_NERVOUS_SYSTEM U2904_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CCLF_PEDS_0048_T NRH-GCT2 SNU1079_BILIARY_TRACT MYM12_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE OACP4C_OESOPHAGUS CHLA266_SOFT_TISSUE PEO1_OVARY OVCAR8_OVARY NCIH1437_LUNG HS445_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SF295_CENTRAL_NERVOUS_SYSTEM MHHCALL2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE UPCISCC111_UPPER_AERODIGESTIVE_TRACT CH157MN_CENTRAL_NERVOUS_SYSTEM MET2B_SKIN TCCPAN2_PANCREAS KMRC3_KIDNEY SUM190PT_BREAST FUJI_SOFT_TISSUE CP50MELB_SKIN LU135_LUNG SH4_SKIN SNU1411_LARGE_INTESTINE OMC1_CERVIX YMB1_BREAST WM278_SKIN NCIH1648_LUNG RC_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE G361_SKIN C4II_CERVIX TY82_UPPER_AERODIGESTIVE_TRACT ICC10_BILIARY_TRACT CL11_LARGE_INTESTINE CHLA01RMED_BRAIN SKN3_UPPER_AERODIGESTIVE_TRACT CMK115_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CAPAN2_PANCREAS CCLF_PANC_0074_T SLR23_KIDNEY CORL51_LUNG RT112_URINARY_TRACT SUIT2_PANCREAS NCIH2591_PLEURA RKN_SOFT_TISSUE NB6_AUTONOMIC_GANGLIA NCIH2081_LUNG VAESBJ_SOFT_TISSUE CCLF_UPGI_0078_T PK45H_PANCREAS NCIH1869_LUNG U343_CENTRAL_NERVOUS_SYSTEM RCC4_KIDNEY PANFR0368 COV504_OVARY NZM4_SKIN UKE-1 ME180_CERVIX UMUC1_URINARY_TRACT SG231_BILIARY_TRACT NCIH441_LUNG QIMRWIL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MX1_BREAST MKL2_SKIN TT_THYROID MHHPREB1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SNU1_STOMACH NCIH1450_LUNG CHLA02ATRT_BRAIN CCLFUPGI0003T_STOMACH KO52_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MEWO_SKIN NCIH1694_LUNG MOLT3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE VMRCMELG_SKIN CA922_UPPER_AERODIGESTIVE_TRACT SUPB8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE BT474_BREAST EPLC272H_LUNG BLUE1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HSPSS_CENTRAL_NERVOUS_SYSTEM BFTC905_URINARY_TRACT HT115_LARGE_INTESTINE YAMATO_SOFT_TISSUE NRH-UPS2 ICC5_BILIARY_TRACT CL40_LARGE_INTESTINE CAL72_BONE PFSK1_CENTRAL_NERVOUS_SYSTEM ECC10_STOMACH KYSE220_OESOPHAGUS ISTSL1_LUNG A549H3_Lung SNU1544_LARGE_INTESTINE PACADD135_PANCREAS NCIH2804_PLEURA CAOV3_OVARY U87MG_CENTRAL_NERVOUS_SYSTEM MOLP8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KG1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE TEN_ENDOMETRIUM RKO_LARGE_INTESTINE C32_SKIN A549_LUNG SKNEP1_BONE COLO320HSR_LARGE_INTESTINE MKN74_STOMACH NZM2_SKIN COLO679_SKIN SUM149PT_BREAST THP1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH1650_LUNG BROLI_SKIN M14_SKIN HEYA8_OVARY NCIH1417_LUNG NCIH1963_LUNG NCIH630_LARGE_INTESTINE LUDLU1_LUNG CCLFPEDS0019T_BONE MS1_LUNG RD_SOFT_TISSUE CORL95_LUNG SCLC21H_LUNG CCLF_RARE_0004_T DIFI_LARGE_INTESTINE H314_UPPER_AERODIGESTIVE_TRACT CESS_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE UBLC1_URINARY_TRACT OCIC4P_OVARY LCLC97TM1_LUNG TE6_OESOPHAGUS CPCN_LUNG T47D_BREAST NCIH661_LUNG NB10_AUTONOMIC_GANGLIA EWS502_BONE NCIH2023_LUNG D283MED_CENTRAL_NERVOUS_SYSTEM BT12_SOFT_TISSUE SNU503_LARGE_INTESTINE SUPT11_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KG1C_CENTRAL_NERVOUS_SYSTEM SNU1272_KIDNEY OV90_OVARY TTC1240_SOFT_TISSUE KMCH1_BILIARY_TRACT TF1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE YT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SBC5_LUNG OCILY7_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE G292CLONEA141B1_BONE JHH2_LIVER NCIH1876_LUNG SNU245_BILIARY_TRACT UPCISCC152_UPPER_AERODIGESTIVE_TRACT CCLP1_BILIARY_TRACT A172_CENTRAL_NERVOUS_SYSTEM ML2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE UMUC9_URINARY_TRACT RERFLCSQ1_LUNG A2058_SKIN JHOC5_OVARY HOUAI_ENDOMETRIUM BICR6_UPPER_AERODIGESTIVE_TRACT HCM-BROD-0100-C15 SKMEL1_SKIN NCIH1944_LUNG RPMI8402_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SNU61_LARGE_INTESTINE NCIH2810_PLEURA YH13_CENTRAL_NERVOUS_SYSTEM CCLF_PEDS_0013_T KYSE410_OESOPHAGUS SKBR3_BREAST CAL12T_LUNG GAK_SKIN VMRCLCD_LUNG A375_SKIN BB30HNC_UPPER_AERODIGESTIVE_TRACT LB2241RCC_KIDNEY JIYOYEP2003_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCCCCS1BC1_Sarcoma_Clear_Cell NO11_CENTRAL_NERVOUS_SYSTEM KARPAS422_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HS766T_PANCREAS RCM1_LARGE_INTESTINE PCI4B_UPPER_AERODIGESTIVE_TRACT SCS214_SOFT_TISSUE 21MT1_BREAST HT1197_URINARY_TRACT U251MG_CENTRAL_NERVOUS_SYSTEM 201T_LUNG HCC38_BREAST NCIH226_LUNG NCIH211_LUNG SNU1235_LARGE_INTESTINE NB1_AUTONOMIC_GANGLIA NZM6_SKIN MDAMB435S_SKIN CALU6_LUNG SW1573_LUNG PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HCC2998_LARGE_INTESTINE HUH28_BILIARY_TRACT ES4_BONE JURLMK1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH841_LUNG UPCISCC026_UPPER_AERODIGESTIVE_TRACT OVSAHO_OVARY RC2_SOFT_TISSUE HIRSBM_ENDOMETRIUM CP66MEL_SKIN RXF393_KIDNEY LB647SCLC_LUNG RMUGS_OVARY GISTT1_STOMACH H2369_PLEURA A2780_OVARY NCCMPNST3C1_MPNST NCIH2141_LUNG NCIH128_LUNG TM87_SOFT_TISSUE SNU1105_CENTRAL_NERVOUS_SYSTEM OUMS23_LARGE_INTESTINE IGROV1_OVARY SLR25_KIDNEY LU139_LUNG SNU489_CENTRAL_NERVOUS_SYSTEM CAMA1_BREAST ES1_BONE MCC13_SKIN TK10_KIDNEY Z119_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KPNSI9S_AUTONOMIC_GANGLIA JHOM2B_OVARY HCS2_CERVIX ES3_BONE NCIH2461_PLEURA SKPNDW_BONE BFTC909_KIDNEY OC316_OVARY HS633T_SOFT_TISSUE SNU638_STOMACH MDAMB468_BREAST HNT34_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE LB2518MEL_SKIN YAPC_PANCREAS ME1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SF268_CENTRAL_NERVOUS_SYSTEM NCIH1299_LUNG CORL303_LUNG SCC9_UPPER_AERODIGESTIVE_TRACT CCLF_PANC_0002_T RBE_BILIARY_TRACT JHH1_LIVER HCT8_LARGE_INTESTINE HEC50B_ENDOMETRIUM LS_AUTONOMIC_GANGLIA HCC2688_BREAST SW1116_LARGE_INTESTINE NUGC2_STOMACH MB1_THYROID NCIH1436_LUNG SIMA_AUTONOMIC_GANGLIA 9505BIK_PANCREAS NBSUSSR_AUTONOMIC_GANGLIA L540_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE RERFLCAD1_LUNG NCIH2066_LUNG 647V_URINARY_TRACT HF_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE UPCISCC154_UPPER_AERODIGESTIVE_TRACT COLO824_BREAST H9_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE COV644_OVARY NCIH2052_PLEURA TUR_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE EW3_BONE HKA1_SKIN SNU1197_LARGE_INTESTINE H290_PLEURA KP3_PANCREAS BICR56_UPPER_AERODIGESTIVE_TRACT NCIH2595_PLEURA CHSA0108_BONE CX03_ENDOMETRIUM BT483_BREAST UHO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE JR_SOFT_TISSUE CORL321_LUNG HCC1428_BREAST 22RV1_PROSTATE REC1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CCLFNEURO0001T_CENTRAL_NERVOUS_SYSTEM RMZ_SOFT_TISSUE ICC4_BILIARY_TRACT HCC1395_BREAST NZM42_SKIN KPL1_BREAST CORL311_LUNG NCIH28_PLEURA EW13_BONE NCIH2170_LUNG HEMCSS_BONE SUCCS1_SOFT_TISSUE 2313287_STOMACH KE37_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KYSE180_OESOPHAGUS SKM1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NB13_AUTONOMIC_GANGLIA NEC8_TESTIS SUPHD1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CCLFMELM0003T_SKIN RCCER_KIDNEY WM4235_SKIN NCIH854_LUNG NZM5_SKIN SNU899_UPPER_AERODIGESTIVE_TRACT NCIH2818_PLEURA NCIH250_LUNG MO_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE RERFGC1B_STOMACH 143B_BONE LB1047RCC_KIDNEY JEKO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MN60_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE L33_PANCREAS MDAPCA2B_PROSTATE EW8_BONE MM473_SKIN PSS008_BONE HCE4_OESOPHAGUS QGP1_PANCREAS MV411_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SKMG1_CENTRAL_NERVOUS_SYSTEM BV173_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE OVCAR4_OVARY LC1F_LUNG ONDA9_CENTRAL_NERVOUS_SYSTEM COLO678_LARGE_INTESTINE GCT_SOFT_TISSUE MERO83_PLEURA CCLF_MELM_0010_T HUO3N1_BONE NCIH1568_LUNG KMH2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HCC827_LUNG CHLA32_BONE NCIH2073_LUNG PEA1_OVARY SKRC52_KIDNEY GOS3_CENTRAL_NERVOUS_SYSTEM D245MG_CENTRAL_NERVOUS_SYSTEM NCIH1373_LUNG MSTO211H_PLEURA UO31_KIDNEY RERFLCMS_LUNG OPM1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KLE_ENDOMETRIUM SKLMS1_SOFT_TISSUE SUDHL16_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE CW2_LARGE_INTESTINE MLMA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE OMM25_UVEA SCMCRM2_SOFT_TISSUE OCIMY7_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE ECC12_STOMACH MEC1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE GRANTA519_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE PCI30_UPPER_AERODIGESTIVE_TRACT MHHCALL4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KOSC2CL343_UPPER_AERODIGESTIVE_TRACT ZR7530_BREAST COLO783_SKIN RVH421_SKIN_FV1_RESISTANT HCC70_BREAST RERFLCFM_LUNG MTA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE D336MG_CENTRAL_NERVOUS_SYSTEM NCIH1836_LUNG SJRH30_SOFT_TISSUE JVE207_COLON HCA1_CERVIX SW156_KIDNEY UMHACC2A_UPPER_AERODIGESTIVE_TRACT EFE184_ENDOMETRIUM BT549_BREAST MERO14_PLEURA JMP1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH1993_LUNG JM1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE SNU349_KIDNEY BOKU_CERVIX 639V_URINARY_TRACT RERFLCAI_LUNG M140325_SKIN NUGC4_STOMACH G415_BILIARY_TRACT MAPACHS77_PANCREAS CROAP2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE BT16_SOFT_TISSUE NZOV9_OVARY PEO4_OVARY MEL202_UVEA TK_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE ALLSIL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE PANC0213_PANCREAS ISTMES1_PLEURA CCLFUPGI0005T_STOMACH GIMEN_AUTONOMIC_GANGLIA GMEL_SKIN CTV1DM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE HS939T_SKIN RCK8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH650_LUNG IMR5_AUTONOMIC_GANGLIA LB373MELD_SKIN BJAB_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KARPAS384_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MHHNB11_AUTONOMIC_GANGLIA RH28_SOFT_TISSUE HARA_LUNG C4I_CERVIX GCT27_TESTIS FARAGE_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE PECAPJ34CLONEC12_UPPER_AERODIGESTIVE_TRACT IGR37_SKIN KYSE50_OESOPHAGUS NCIH1688_LUNG MEL285_UVEA STM9101_SOFT_TISSUE SNU410_PANCREAS TALL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE RCCFG2_KIDNEY NCIH1581_LUNG CAL51_BREAST SW962_VULVA OCILY19_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE PCI6A_UPPER_AERODIGESTIVE_TRACT OCIAML5_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NRH-UPS1 NCIH2135_LUNG UPCISCC040_UPPER_AERODIGESTIVE_TRACT TUHR4TKB_KIDNEY WM3211_SKIN BGC823_STOMACH HB1119_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE DOHH2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE MKN45_STOMACH SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE KKU100_BILIARY_TRACT RPMI7951_SKIN LC1SQSF_LUNG GP2D_LARGE_INTESTINE SEMK2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE NCIH720_LUNG HS944T_SKIN CHP126_AUTONOMIC_GANGLIA NCIH835_LUNG TE11_OESOPHAGUS HCT15_LARGE_INTESTINE diff --git a/public/ccle_broad_2025/data_clinical_patient.txt b/public/ccle_broad_2025/data_clinical_patient.txt new file mode 100644 index 000000000..da22efcb5 --- /dev/null +++ b/public/ccle_broad_2025/data_clinical_patient.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:cf61adf3ecf061998040d512799a303094e5af2f183f2e121f80b7d89559b916 +size 48804 diff --git a/public/ccle_broad_2025/data_clinical_sample.txt b/public/ccle_broad_2025/data_clinical_sample.txt new file mode 100644 index 000000000..73fb89ade --- /dev/null +++ b/public/ccle_broad_2025/data_clinical_sample.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:eb05789d71c513b08ee5ba79fe58235a97ac39d911cfcd5bba09af5883b343cc +size 333287 diff --git a/public/ccle_broad_2025/data_mutations.txt b/public/ccle_broad_2025/data_mutations.txt new file mode 100644 index 000000000..6d0effbd6 --- /dev/null +++ b/public/ccle_broad_2025/data_mutations.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:7e7bf991ee637de0ebe074d91b939ddb7415e9ab9190cc7642cc0cbf96b74740 +size 195358730 diff --git a/public/ccle_broad_2025/meta_clinical_patient.txt b/public/ccle_broad_2025/meta_clinical_patient.txt new file mode 100644 index 000000000..7a5315d2f --- /dev/null +++ b/public/ccle_broad_2025/meta_clinical_patient.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: ccle_broad_2025 +data_filename: data_clinical_patient.txt +genetic_alteration_type: CLINICAL +datatype: PATIENT_ATTRIBUTES diff --git a/public/ccle_broad_2025/meta_clinical_sample.txt b/public/ccle_broad_2025/meta_clinical_sample.txt new file mode 100644 index 000000000..59035f68e --- /dev/null +++ b/public/ccle_broad_2025/meta_clinical_sample.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: ccle_broad_2025 +data_filename: data_clinical_sample.txt +genetic_alteration_type: CLINICAL +datatype: SAMPLE_ATTRIBUTES diff --git a/public/ccle_broad_2025/meta_mutations.txt b/public/ccle_broad_2025/meta_mutations.txt new file mode 100644 index 000000000..6f233db27 --- /dev/null +++ b/public/ccle_broad_2025/meta_mutations.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: ccle_broad_2025 +data_filename: data_mutations.txt +stable_id: mutations +genetic_alteration_type: MUTATION_EXTENDED +datatype: MAF +show_profile_in_analysis_tab: TRUE +profile_name: Mutations +profile_description: Mutation data from whole genome and whole exome sequencing diff --git a/public/ccle_broad_2025/meta_study.txt b/public/ccle_broad_2025/meta_study.txt new file mode 100644 index 000000000..ec3c6c04c --- /dev/null +++ b/public/ccle_broad_2025/meta_study.txt @@ -0,0 +1,5 @@ +type_of_cancer: mixed +cancer_study_identifier: ccle_broad_2025 +name: Cancer Cell Line Encyclopedia (Broad, 2025) +description: Whole genome and whole exome sequencing of 1,790 pancancer samples from the Cancer Cell Line Encyclopedia (CCLE). CCLE from Broad Institute and Novartis, 2025 (25Q2) update. Data downloaded from the Depmap Portal. +reference_genome: hg38 \ No newline at end of file diff --git a/public/ccle_genentech_2014/README.md b/public/ccle_genentech_2014/README.md new file mode 100644 index 000000000..d6bd773f2 --- /dev/null +++ b/public/ccle_genentech_2014/README.md @@ -0,0 +1,27 @@ +ccle_genentech_2014 Study Curation + +Clinical Data +Supplementary Table 1 +Patient/Sample ID transformation: +Cell line ID -> Patient/Sample ID +Oncotree codes based on tissue diagnosis (general code used for diagnoses with no oncotree codes) + +Gistic Data +Supplementary Table 4: Results for GISTIC analysis run on 610 cell lines + +Mutation Data +Supplementary Data 3: All single nucleotide mutations found in cell lines in this study. +Data was transformed to MAF format and annotated using Genome Nexus + +Structural Variants +Supplementary Table 8: Gene-gene fusions identified in cancer cell lines +Gene fusion data was used to obtain structural variant data using the fusion-to-sv-converter script from the Data Curation Tools + + +Expression Data +Supplementary Data 1: Gene expression read counts for all coding genes + + +Notes: +-White space in original sample ID was replaced with - or no space +-"S-" and "P-" prefix for sample and patient IDs \ No newline at end of file diff --git a/public/ccle_genentech_2014/case_lists/cases_RNA_Seq_mRNA.txt b/public/ccle_genentech_2014/case_lists/cases_RNA_Seq_mRNA.txt new file mode 100644 index 000000000..b9391dec1 --- /dev/null +++ b/public/ccle_genentech_2014/case_lists/cases_RNA_Seq_mRNA.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: ccle_genentech_2014 +stable_id: ccle_genentech_2014_rna_seq_mrna +case_list_name: Samples with mRNA data (RNA Seq) +case_list_description: Samples with mRNA expression data (675 samples) +case_list_category: all_cases_with_mrna_rnaseq_data +case_list_ids: S-UKE-1 S-SNU-475 S-LS-1 S-G-402 S-HCC1162 S-HCC461 S-NCI-H1435 S-NCI-H716 S-UACC-257 S-COLO-320DM S-C2BBe1 S-PK-45P S-NCI-H1975 S-LoVo S-BICR-22 S-HS-294T S-HepG2 S-COLO-679 S-COLO-678 S-TOV-112D S-AsPC-1 S-MeWo S-A2780 S-UCSD-242l S-BT-20 S-RPMI-7951 S-SK-MEL-5 S-HCC1482 S-DAN-G S-HOS-62 S-SK-MEL-2 S-NCI-H2081 S-NCI-H322T S-SU-DHL-16 S-NCI-H2135 S-HS-766T S-CX-1 S-SCC-3 S-SCC-9 S-DU4475 S-RL S-786-O S-BT-483 S-NCI-H1437 S-SF268 S-SK-MM-2 S-SW-780 S-SNU-719 S-888 S-NCI-H1155 S-HCC4017 S-CI-1 S-HCC4011 S-NCI-H1650 S-NCI-H2030 S-Detroit562 S-CL-40 S-HBL-100 S-DMS-79 S-FaDu S-AN3-CA S-LN-229 S-HCA-7 S-ME-180 S-ABC-1 S-HCC1599 S-BT-474 S-SNU-398 S-WM-266-4 S-LCLC-97TM1 S-CL-34 S-COR-L88 S-C-33A S-HCC1263 S-NCI-H2106 S-HCC1500 S-G22 S-NCI-H196 S-SK-MES-1 S-NCI-H209 S-OCI-LY-19 S-CHL-1 S-OCI-LY-10 S-MDA-MB-134-VI S-NCI-H1573 S-HCC1359 S-NCI-H596 S-HCT-8 S-EVSA-T S-K-562 S-HCC2935 S-LOX-IMVI S-T84 S-NCI-H292 S-HCC60 S-HT-29 S-RCM-1 S-SNU-C1 S-CA-Ski S-PA-TU-8988S S-QGS-1 S-PA-TU-8988T S-NCI-H2810 S-DOR-13 S-SUM-149PT S-SU-DHL-10 S-OUMS-23 S-HCC202 S-NCI-H1882 S-RKO-E6 S-SK-MEL-3 S-RERF-GC-1B S-SK-MEL-1 S-FU97 S-MDA-MB-361 S-KU812 S-G130 S-NCI-H1395 S-A-498 S-MDST8 S-PK-8 S-NCI-H1869 S-23132-87 S-Jiyoye S-HS-Sultan S-C32TG S-PSN1 S-UACC-812 S-SNU-182 S-HS-839-T S-Daudi S-JHH-4 S-OAW28 S-COLO-680N S-NCI-H2369 S-TYK-nu-CS-r S-TK-10 S-KYSE-180 S-HCC1493 S-EB2 S-EB1 S-COLO-783 S-COR-L47 S-PC-3 S-MHH-PREB-1 S-GP5d S-G61 S-KYSE-520 S-HCC1954 S-59M S-LXFL529 S-U-937 S-COLO-206F S-OV56 S-HCC2885 S-MOLM-16 S-H322T S-NCI-H650 S-DU145 S-MDA-MB-436 S-HCC38 S-MS751 S-IM-95 S-HT-55 S-JIMT-1 S-HCC33 S-Capan-2 S-Capan-1 S-RI-1 S-AMO-1 S-CAL51 S-OVMANA S-LOU-NH91 S-CAL54 S-SIG-M5 S-WSU-DLCL2 S-KHM-1B S-RT-112 S-HCC1395 S-LNCAP S-KPL-1 S-G-361 S-HCC-15 S-NCI-H889 S-CCRF-SB S-KCI-MOH1 S-NCI-N87 S-JJ012 S-NCI-H727 S-NAMALWA S-HCC89 S-KPL-4 S-KMS-11 S-UM-UC-1 S-TMD8 S-HS-695T S-OCI-AML2 S-OCI-AML3 S-OCI-AML5 S-BICR-10 S-CAMA-1 S-LN-18 S-MKN-1 S-SK-N-AS S-IGROV-1 S-PA-1 S-OCUM-1 S-COLO-849 S-KS-2 S-HCT-15 S-A172 S-NCI-H345 S-NCI-H1299 S-NTERA-2 S-KARPAS-422 S-MDA-MB-435 S-SNU-16 S-NALM-6 S-HCC2157 S-YMB-1 S-NCI-H1915 S-HEL S-SNU-449 S-C170 S-OvCA-432 S-KYSE-270 S-HCC193 S-HEY S-G124 S-MCF-7 S-NCI-H28 S-NCI-H1666 S-NCI-H2023 S-MHH-NB-11 S-OPM-2 S-HEC-1-A S-WiDr S-IM-95m S-REC-1 S-U266B1 S-KYSE-150 S-MX-1 S-NCI-H2122 S-HS-852-T S-HCC1187 S-Panc-03-27 S-HPAC S-OCI-LY-7 S-NCI-H23 S-OCI-LY-3 S-G59 S-PL-21 S-NCI-H2110 S-IPC-298 S-NCI-H2052 S-EKVX S-TCC-PAN2 S-HS-940-T S-NCI-H1568 S-SiHa S-HCC366 S-HUS-T3 S-HCC364 S-OV-90 S-HUS-T4 S-KMS-28BM S-SK-N-SH S-Panc-05-04 S-JEKO-1 S-HCC70 S-RMUG-S S-TK S-HCC78 S-CAL27 S-OvCA-429 S-UACC-893 S-SUIT-2 S-RPMI2650 S-RKN S-RKO S-NCI-H1693 S-WM-115 S-KMS-28PE S-HCC1143 S-ChaGo-K-1 S-L-363 S-HS-936-T S-MT-3 S-PK-59 S-SC-1 S-G142 S-G140 S-G141 S-KMS-27 S-SW-1417 S-OVTOKO S-BEN S-SNU-423 S-KYSE-70 S-U-698-M S-CFPAC-1 S-VMRC-LCD S-HCC827 S-HCC1428 S-RERF-LC-OK S-U-2932 S-OAW42 S-SNU-216 S-105KC S-NCI-H1623 S-KLM-1 S-DMS-454 S-MKN-45 S-UMC-11 S-NCI-H2373 S-WSU-NHL S-KMS-12-BM S-SK-MEL-24 S-NCI-H1651 S-MDA-MB-175-VII S-OVCA-420 S-BFTC-909 S-Panc-08-13 S-MDA-MB-157 S-DLD-1 S-WSU-FSCCL S-SW-527 S-HCC1569 S-PE-CA-PJ15 S-Pfeiffer S-Kasumi-1 S-HS-578T S-SR S-SCC-15 S-GA-10 S-G96 S-HuH-7 S-HCC1806 S-HCC1419 S-KLE S-KYSE-30 S-A4-Fuk S-KMS-12-PE S-Panc-02-03 S-NCI-H522 S-NCI-H520 S-NCI-H2722 S-HS-746T S-NCI-H1355 S-SK-BR-3 S-KYSE-510 S-ML-2 S-OVKATE S-COR-L279 S-PK-45H S-U-2-OS S-NCI-H2795 S-HS-38-T S-EBC-1 S-MG-63 S-NCI-H2126 S-NCI-H1793 S-PA-TU-8902 S-DV-90 S-AGS S-NCI-H1092 S-CW-2 S-NCI-H226 S-Farage S-MDA-MB-330 S-NCI-H187 S-KMS-26 S-C32 S-KMM-1 S-MDA-MB-231 S-A-427 S-MM-1S S-KURAMOCHI S-SW-1990 S-HT-1080 S-COLO-201 S-SUM-229PE S-COLO-205 S-SW-900 S-HCC2688 S-RPMI8226 S-NCI-H1838 S-RERF-LC-KJ S-SK-N-FI S-COLO-853 S-NCI-H358 S-SNU-484 S-COLO-857 S-MHH-ES-1 S-LCLC-103H S-HS-69ST S-NCI-H1703 S-ZR-75-1 S-NCI-H820 S-G111 S-G112 S-G118 S-C3A S-IGR-37 S-SW-620 S-SW-837 S-SW-1463 S-IMR-32 S-PANC-1 S-HS-675-T S-Okajima S-SW-403 S-BT-549 S-NCI-H2198 S-Caov-3 S-HL-60 S-NCI-H2196 S-SNU-638 S-UM-UC-3 S-Panc-04-03 S-Caco-2 S-CHS-212 S-MC116 S-A549 S-NCI-H1770 S-KATO-III S-COLO-800 S-NCI-H2347 S-KMS-21BM S-SCLC-21H S-DMS-53 S-SUS-B15 S-M059J S-M059K S-TYK-nu S-KNS-62 S-HCC12 S-CL-11 S-SNU-5 S-CAL-148 S-SNU-1 S-RT4 S-SCC-25 S-DMS-273 S-HCC1937 S-LS-180 S-BJAB S-ME-1 S-DOK S-G44 S-928-mel S-RC-K8 S-ZR-75-30 S-Caki-2 S-Caki-1 S-ATRFLOX S-Calu-6 S-JJN-3 S-Calu-3 S-Calu-1 S-EFM-192A S-EFM-192C S-EFM-192B S-THS-1 S-HS-895-T S-OVCAR433 S-SKM-1 S-A2058 S-HCC2911 S-BxPC-3 S-PL45 S-HCC44 S-SW-948 S-NCI-H82 S-HCC2270 S-NCI-H1792 S-HT-144 S-COLO-818 S-GTL-16 S-huH-1 S-HCC2279 S-LS1034 S-HCC1171 S-MDA-MB-468 S-JHH-2 S-JHH-1 S-JHH-7 S-HCC1011 S-JHH-5 S-NCI-H460 S-NCI-H1581 S-GP2d S-NCI-H1944 S-A-673 S-BICR-31 S-ACHN S-T-47D S-HGC-27 S-GR-M S-CaR-1 S-HT S-NIH-OVCAR-3 S-NCI-H2804 S-SK23 S-HN S-NU-DUL-1 S-MKN-74 S-NCI-H1734 S-NCI-H810 S-NCI-H2461 S-SJCRH30 S-MDA-MB-415 S-NCI-H510A S-PE01 S-A-375 S-HS-683 S-SK-MEL-30 S-SK-MEL-31 S-NUGC-2 S-NUGC-3 S-GRANTA-519 S-NUGC-4 S-NCI-H2171 S-KELLY S-HCC2302 S-EFM-19 S-COV362 S-DEOC-1 S-KYSE-450 S-NCI-N417 S-SK-CO-1 S-SNU-668 S-NCI-H1648 S-KG-1 S-HCT116 S-143B S-NCI-H929 S-HCC4006 S-HCC2218 S-NCI-H920 S-RAMOS S-KARPAS-1106P S-KYSE-140 S-G84 S-MCF10DCIS-com S-JL-1 S-LXF-289 S-DOHH-2 S-MFM-223 S-KARPAS-620 S-SET-2 S-MEL-HO S-COV413A S-COV413B S-MV-4-11 S-SUM-1315M02 S-OV7 S-Jurkat-CloneE6-1 S-HPAF-II S-SW-982 S-624-mel S-COV434 S-SUM-52PE S-SNU-387 S-HOS-92 S-ES-2 S-YMB-1-E S-HCC1576 S-MOR S-NCI-H1781 S-HCC515 S-BHY S-SNU-601 S-COV318 S-OCI-M2 S-OCI-M1 S-501A S-KMS-34 S-A-431 S-NCI-H2803 S-BICR-78 S-HeLa S-NCI-H2009 S-SW-1116 S-COLO-741 S-A3-KAW S-PLC-PRF-5 S-EFO-27 S-SU-DHL-1 S-SU-DHL-6 S-SU-DHL-4 S-SU-DHL-5 S-CAL-85-1 S-SU-DHL-8 S-HT-115 S-RAJI S-HMY-1 S-NCI-H446 S-NCI-H441 S-KS-3 S-SR-786 S-HES-2 S-769-P S-Toledo S-SUM-159PT S-COLO-829 S-G120 S-G121 S-G122 S-MDA-MB-453 S-NCI-H2228 S-COV504 S-SW-48 S-CPC-N S-DB S-NCI-H1930 S-EB-3 S-SW-1573 S-TC-71 S-COR-L26 S-MOLS-8 S-CAL-120 S-MOLS-2 S-MKN-7 S-SF539 S-SNU-620 S-HCC630 S-KM-12 S-NCI-H2596 S-SU-86-86 S-NCI-H2595 S-HM7 S-NCI-H2452 S-NCI-H847 S-T98G S-SW-480 S-EPLC-272H S-COLO-699 S-SK-OV-3 S-COV644 S-CAL-12T S-MCAS S-G28T S-COLO-792 S-COLO-794 S-NCI-H1048 S-537-MEL S-EJM S-OVSAHO S-BFTC-905 S-KP4 S-HCC1534 S-NCI-H2170 S-HS-255-T S-NCI-H2172 S-NCI-H2073 S-HCC1319 S-LS-174T S-HNT-34 S-YAPC S-MCF10A S-SK-MEL-28 S-RERF-LC-MS S-SK-N-DZ S-NCI-H1373 S-RMG-I S-OVCAR-5 S-OVCAR-4 S-MIA-Paca-2 S-COLO-704 S-OVCAR-8 S-CA46 S-NCI-H146 S-SCLC-22H S-OVISE diff --git a/public/ccle_genentech_2014/case_lists/cases_all.txt b/public/ccle_genentech_2014/case_lists/cases_all.txt new file mode 100644 index 000000000..0dbba2179 --- /dev/null +++ b/public/ccle_genentech_2014/case_lists/cases_all.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: ccle_genentech_2014 +stable_id: ccle_genentech_2014_all +case_list_name: All samples +case_list_description: All samples (675 samples) +case_list_category: all_cases_in_study +case_list_ids: S-UKE-1 S-SNU-475 S-LS-1 S-G-402 S-HCC1162 S-HCC461 S-NCI-H1435 S-NCI-H716 S-UACC-257 S-COLO-320DM S-C2BBe1 S-PK-45P S-NCI-H1975 S-LoVo S-BICR-22 S-HS-294T S-HepG2 S-COLO-679 S-COLO-678 S-TOV-112D S-AsPC-1 S-MeWo S-A2780 S-UCSD-242l S-BT-20 S-RPMI-7951 S-SK-MEL-5 S-HCC1482 S-DAN-G S-HOS-62 S-SK-MEL-2 S-NCI-H2081 S-NCI-H322T S-SU-DHL-16 S-NCI-H2135 S-HS-766T S-CX-1 S-SCC-3 S-SCC-9 S-DU4475 S-RL S-786-O S-BT-483 S-NCI-H1437 S-SF268 S-SK-MM-2 S-SW-780 S-SNU-719 S-888 S-NCI-H1155 S-HCC4017 S-CI-1 S-HCC4011 S-NCI-H1650 S-NCI-H2030 S-Detroit562 S-CL-40 S-HBL-100 S-DMS-79 S-FaDu S-AN3-CA S-LN-229 S-HCA-7 S-ME-180 S-ABC-1 S-HCC1599 S-BT-474 S-SNU-398 S-WM-266-4 S-LCLC-97TM1 S-CL-34 S-COR-L88 S-C-33A S-HCC1263 S-NCI-H2106 S-HCC1500 S-G22 S-NCI-H196 S-SK-MES-1 S-NCI-H209 S-OCI-LY-19 S-CHL-1 S-OCI-LY-10 S-MDA-MB-134-VI S-NCI-H1573 S-HCC1359 S-NCI-H596 S-HCT-8 S-EVSA-T S-K-562 S-HCC2935 S-LOX-IMVI S-T84 S-NCI-H292 S-HCC60 S-HT-29 S-RCM-1 S-SNU-C1 S-CA-Ski S-PA-TU-8988S S-QGS-1 S-PA-TU-8988T S-NCI-H2810 S-DOR-13 S-SUM-149PT S-SU-DHL-10 S-OUMS-23 S-HCC202 S-NCI-H1882 S-RKO-E6 S-SK-MEL-3 S-RERF-GC-1B S-SK-MEL-1 S-FU97 S-MDA-MB-361 S-KU812 S-G130 S-NCI-H1395 S-A-498 S-MDST8 S-PK-8 S-NCI-H1869 S-23132-87 S-Jiyoye S-HS-Sultan S-C32TG S-PSN1 S-UACC-812 S-SNU-182 S-HS-839-T S-Daudi S-JHH-4 S-OAW28 S-COLO-680N S-NCI-H2369 S-TYK-nu-CS-r S-TK-10 S-KYSE-180 S-HCC1493 S-EB2 S-EB1 S-COLO-783 S-COR-L47 S-PC-3 S-MHH-PREB-1 S-GP5d S-G61 S-KYSE-520 S-HCC1954 S-59M S-LXFL529 S-U-937 S-COLO-206F S-OV56 S-HCC2885 S-MOLM-16 S-H322T S-NCI-H650 S-DU145 S-MDA-MB-436 S-HCC38 S-MS751 S-IM-95 S-HT-55 S-JIMT-1 S-HCC33 S-Capan-2 S-Capan-1 S-RI-1 S-AMO-1 S-CAL51 S-OVMANA S-LOU-NH91 S-CAL54 S-SIG-M5 S-WSU-DLCL2 S-KHM-1B S-RT-112 S-HCC1395 S-LNCAP S-KPL-1 S-G-361 S-HCC-15 S-NCI-H889 S-CCRF-SB S-KCI-MOH1 S-NCI-N87 S-JJ012 S-NCI-H727 S-NAMALWA S-HCC89 S-KPL-4 S-KMS-11 S-UM-UC-1 S-TMD8 S-HS-695T S-OCI-AML2 S-OCI-AML3 S-OCI-AML5 S-BICR-10 S-CAMA-1 S-LN-18 S-MKN-1 S-SK-N-AS S-IGROV-1 S-PA-1 S-OCUM-1 S-COLO-849 S-KS-2 S-HCT-15 S-A172 S-NCI-H345 S-NCI-H1299 S-NTERA-2 S-KARPAS-422 S-MDA-MB-435 S-SNU-16 S-NALM-6 S-HCC2157 S-YMB-1 S-NCI-H1915 S-HEL S-SNU-449 S-C170 S-OvCA-432 S-KYSE-270 S-HCC193 S-HEY S-G124 S-MCF-7 S-NCI-H28 S-NCI-H1666 S-NCI-H2023 S-MHH-NB-11 S-OPM-2 S-HEC-1-A S-WiDr S-IM-95m S-REC-1 S-U266B1 S-KYSE-150 S-MX-1 S-NCI-H2122 S-HS-852-T S-HCC1187 S-Panc-03-27 S-HPAC S-OCI-LY-7 S-NCI-H23 S-OCI-LY-3 S-G59 S-PL-21 S-NCI-H2110 S-IPC-298 S-NCI-H2052 S-EKVX S-TCC-PAN2 S-HS-940-T S-NCI-H1568 S-SiHa S-HCC366 S-HUS-T3 S-HCC364 S-OV-90 S-HUS-T4 S-KMS-28BM S-SK-N-SH S-Panc-05-04 S-JEKO-1 S-HCC70 S-RMUG-S S-TK S-HCC78 S-CAL27 S-OvCA-429 S-UACC-893 S-SUIT-2 S-RPMI2650 S-RKN S-RKO S-NCI-H1693 S-WM-115 S-KMS-28PE S-HCC1143 S-ChaGo-K-1 S-L-363 S-HS-936-T S-MT-3 S-PK-59 S-SC-1 S-G142 S-G140 S-G141 S-KMS-27 S-SW-1417 S-OVTOKO S-BEN S-SNU-423 S-KYSE-70 S-U-698-M S-CFPAC-1 S-VMRC-LCD S-HCC827 S-HCC1428 S-RERF-LC-OK S-U-2932 S-OAW42 S-SNU-216 S-105KC S-NCI-H1623 S-KLM-1 S-DMS-454 S-MKN-45 S-UMC-11 S-NCI-H2373 S-WSU-NHL S-KMS-12-BM S-SK-MEL-24 S-NCI-H1651 S-MDA-MB-175-VII S-OVCA-420 S-BFTC-909 S-Panc-08-13 S-MDA-MB-157 S-DLD-1 S-WSU-FSCCL S-SW-527 S-HCC1569 S-PE-CA-PJ15 S-Pfeiffer S-Kasumi-1 S-HS-578T S-SR S-SCC-15 S-GA-10 S-G96 S-HuH-7 S-HCC1806 S-HCC1419 S-KLE S-KYSE-30 S-A4-Fuk S-KMS-12-PE S-Panc-02-03 S-NCI-H522 S-NCI-H520 S-NCI-H2722 S-HS-746T S-NCI-H1355 S-SK-BR-3 S-KYSE-510 S-ML-2 S-OVKATE S-COR-L279 S-PK-45H S-U-2-OS S-NCI-H2795 S-HS-38-T S-EBC-1 S-MG-63 S-NCI-H2126 S-NCI-H1793 S-PA-TU-8902 S-DV-90 S-AGS S-NCI-H1092 S-CW-2 S-NCI-H226 S-Farage S-MDA-MB-330 S-NCI-H187 S-KMS-26 S-C32 S-KMM-1 S-MDA-MB-231 S-A-427 S-MM-1S S-KURAMOCHI S-SW-1990 S-HT-1080 S-COLO-201 S-SUM-229PE S-COLO-205 S-SW-900 S-HCC2688 S-RPMI8226 S-NCI-H1838 S-RERF-LC-KJ S-SK-N-FI S-COLO-853 S-NCI-H358 S-SNU-484 S-COLO-857 S-MHH-ES-1 S-LCLC-103H S-HS-69ST S-NCI-H1703 S-ZR-75-1 S-NCI-H820 S-G111 S-G112 S-G118 S-C3A S-IGR-37 S-SW-620 S-SW-837 S-SW-1463 S-IMR-32 S-PANC-1 S-HS-675-T S-Okajima S-SW-403 S-BT-549 S-NCI-H2198 S-Caov-3 S-HL-60 S-NCI-H2196 S-SNU-638 S-UM-UC-3 S-Panc-04-03 S-Caco-2 S-CHS-212 S-MC116 S-A549 S-NCI-H1770 S-KATO-III S-COLO-800 S-NCI-H2347 S-KMS-21BM S-SCLC-21H S-DMS-53 S-SUS-B15 S-M059J S-M059K S-TYK-nu S-KNS-62 S-HCC12 S-CL-11 S-SNU-5 S-CAL-148 S-SNU-1 S-RT4 S-SCC-25 S-DMS-273 S-HCC1937 S-LS-180 S-BJAB S-ME-1 S-DOK S-G44 S-928-mel S-RC-K8 S-ZR-75-30 S-Caki-2 S-Caki-1 S-ATRFLOX S-Calu-6 S-JJN-3 S-Calu-3 S-Calu-1 S-EFM-192A S-EFM-192C S-EFM-192B S-THS-1 S-HS-895-T S-OVCAR433 S-SKM-1 S-A2058 S-HCC2911 S-BxPC-3 S-PL45 S-HCC44 S-SW-948 S-NCI-H82 S-HCC2270 S-NCI-H1792 S-HT-144 S-COLO-818 S-GTL-16 S-huH-1 S-HCC2279 S-LS1034 S-HCC1171 S-MDA-MB-468 S-JHH-2 S-JHH-1 S-JHH-7 S-HCC1011 S-JHH-5 S-NCI-H460 S-NCI-H1581 S-GP2d S-NCI-H1944 S-A-673 S-BICR-31 S-ACHN S-T-47D S-HGC-27 S-GR-M S-CaR-1 S-HT S-NIH-OVCAR-3 S-NCI-H2804 S-SK23 S-HN S-NU-DUL-1 S-MKN-74 S-NCI-H1734 S-NCI-H810 S-NCI-H2461 S-SJCRH30 S-MDA-MB-415 S-NCI-H510A S-PE01 S-A-375 S-HS-683 S-SK-MEL-30 S-SK-MEL-31 S-NUGC-2 S-NUGC-3 S-GRANTA-519 S-NUGC-4 S-NCI-H2171 S-KELLY S-HCC2302 S-EFM-19 S-COV362 S-DEOC-1 S-KYSE-450 S-NCI-N417 S-SK-CO-1 S-SNU-668 S-NCI-H1648 S-KG-1 S-HCT116 S-143B S-NCI-H929 S-HCC4006 S-HCC2218 S-NCI-H920 S-RAMOS S-KARPAS-1106P S-KYSE-140 S-G84 S-MCF10DCIS-com S-JL-1 S-LXF-289 S-DOHH-2 S-MFM-223 S-KARPAS-620 S-SET-2 S-MEL-HO S-COV413A S-COV413B S-MV-4-11 S-SUM-1315M02 S-OV7 S-Jurkat-CloneE6-1 S-HPAF-II S-SW-982 S-624-mel S-COV434 S-SUM-52PE S-SNU-387 S-HOS-92 S-ES-2 S-YMB-1-E S-HCC1576 S-MOR S-NCI-H1781 S-HCC515 S-BHY S-SNU-601 S-COV318 S-OCI-M2 S-OCI-M1 S-501A S-KMS-34 S-A-431 S-NCI-H2803 S-BICR-78 S-HeLa S-NCI-H2009 S-SW-1116 S-COLO-741 S-A3-KAW S-PLC-PRF-5 S-EFO-27 S-SU-DHL-1 S-SU-DHL-6 S-SU-DHL-4 S-SU-DHL-5 S-CAL-85-1 S-SU-DHL-8 S-HT-115 S-RAJI S-HMY-1 S-NCI-H446 S-NCI-H441 S-KS-3 S-SR-786 S-HES-2 S-769-P S-Toledo S-SUM-159PT S-COLO-829 S-G120 S-G121 S-G122 S-MDA-MB-453 S-NCI-H2228 S-COV504 S-SW-48 S-CPC-N S-DB S-NCI-H1930 S-EB-3 S-SW-1573 S-TC-71 S-COR-L26 S-MOLS-8 S-CAL-120 S-MOLS-2 S-MKN-7 S-SF539 S-SNU-620 S-HCC630 S-KM-12 S-NCI-H2596 S-SU-86-86 S-NCI-H2595 S-HM7 S-NCI-H2452 S-NCI-H847 S-T98G S-SW-480 S-EPLC-272H S-COLO-699 S-SK-OV-3 S-COV644 S-CAL-12T S-MCAS S-G28T S-COLO-792 S-COLO-794 S-NCI-H1048 S-537-MEL S-EJM S-OVSAHO S-BFTC-905 S-KP4 S-HCC1534 S-NCI-H2170 S-HS-255-T S-NCI-H2172 S-NCI-H2073 S-HCC1319 S-LS-174T S-HNT-34 S-YAPC S-MCF10A S-SK-MEL-28 S-RERF-LC-MS S-SK-N-DZ S-NCI-H1373 S-RMG-I S-OVCAR-5 S-OVCAR-4 S-MIA-Paca-2 S-COLO-704 S-OVCAR-8 S-CA46 S-NCI-H146 S-SCLC-22H S-OVISE diff --git a/public/ccle_genentech_2014/case_lists/cases_sequenced.txt b/public/ccle_genentech_2014/case_lists/cases_sequenced.txt new file mode 100644 index 000000000..7e77df6b9 --- /dev/null +++ b/public/ccle_genentech_2014/case_lists/cases_sequenced.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: ccle_genentech_2014 +stable_id: ccle_genentech_2014_sequenced +case_list_name: Samples with mutation data +case_list_description: Samples with mutation data (675 samples) +case_list_category: all_cases_with_mutation_data +case_list_ids:S-UKE-1 S-SNU-475 S-LS-1 S-G-402 S-HCC1162 S-HCC461 S-NCI-H1435 S-NCI-H716 S-UACC-257 S-COLO-320DM S-C2BBe1 S-PK-45P S-NCI-H1975 S-LoVo S-BICR-22 S-HS-294T S-HepG2 S-COLO-679 S-COLO-678 S-TOV-112D S-AsPC-1 S-MeWo S-A2780 S-UCSD-242l S-BT-20 S-RPMI-7951 S-SK-MEL-5 S-HCC1482 S-DAN-G S-HOS-62 S-SK-MEL-2 S-NCI-H2081 S-NCI-H322T S-SU-DHL-16 S-NCI-H2135 S-HS-766T S-CX-1 S-SCC-3 S-SCC-9 S-DU4475 S-RL S-786-O S-BT-483 S-NCI-H1437 S-SF268 S-SK-MM-2 S-SW-780 S-SNU-719 S-888 S-NCI-H1155 S-HCC4017 S-CI-1 S-HCC4011 S-NCI-H1650 S-NCI-H2030 S-Detroit562 S-CL-40 S-HBL-100 S-DMS-79 S-FaDu S-AN3-CA S-LN-229 S-HCA-7 S-ME-180 S-ABC-1 S-HCC1599 S-BT-474 S-SNU-398 S-WM-266-4 S-LCLC-97TM1 S-CL-34 S-COR-L88 S-C-33A S-HCC1263 S-NCI-H2106 S-HCC1500 S-G22 S-NCI-H196 S-SK-MES-1 S-NCI-H209 S-OCI-LY-19 S-CHL-1 S-OCI-LY-10 S-MDA-MB-134-VI S-NCI-H1573 S-HCC1359 S-NCI-H596 S-HCT-8 S-EVSA-T S-K-562 S-HCC2935 S-LOX-IMVI S-T84 S-NCI-H292 S-HCC60 S-HT-29 S-RCM-1 S-SNU-C1 S-CA-Ski S-PA-TU-8988S S-QGS-1 S-PA-TU-8988T S-NCI-H2810 S-DOR-13 S-SUM-149PT S-SU-DHL-10 S-OUMS-23 S-HCC202 S-NCI-H1882 S-RKO-E6 S-SK-MEL-3 S-RERF-GC-1B S-SK-MEL-1 S-FU97 S-MDA-MB-361 S-KU812 S-G130 S-NCI-H1395 S-A-498 S-MDST8 S-PK-8 S-NCI-H1869 S-23132-87 S-Jiyoye S-HS-Sultan S-C32TG S-PSN1 S-UACC-812 S-SNU-182 S-HS-839-T S-Daudi S-JHH-4 S-OAW28 S-COLO-680N S-NCI-H2369 S-TYK-nu-CS-r S-TK-10 S-KYSE-180 S-HCC1493 S-EB2 S-EB1 S-COLO-783 S-COR-L47 S-PC-3 S-MHH-PREB-1 S-GP5d S-G61 S-KYSE-520 S-HCC1954 S-59M S-LXFL529 S-U-937 S-COLO-206F S-OV56 S-HCC2885 S-MOLM-16 S-H322T S-NCI-H650 S-DU145 S-MDA-MB-436 S-HCC38 S-MS751 S-IM-95 S-HT-55 S-JIMT-1 S-HCC33 S-Capan-2 S-Capan-1 S-RI-1 S-AMO-1 S-CAL51 S-OVMANA S-LOU-NH91 S-CAL54 S-SIG-M5 S-WSU-DLCL2 S-KHM-1B S-RT-112 S-HCC1395 S-LNCAP S-KPL-1 S-G-361 S-HCC-15 S-NCI-H889 S-CCRF-SB S-KCI-MOH1 S-NCI-N87 S-JJ012 S-NCI-H727 S-NAMALWA S-HCC89 S-KPL-4 S-KMS-11 S-UM-UC-1 S-TMD8 S-HS-695T S-OCI-AML2 S-OCI-AML3 S-OCI-AML5 S-BICR-10 S-CAMA-1 S-LN-18 S-MKN-1 S-SK-N-AS S-IGROV-1 S-PA-1 S-OCUM-1 S-COLO-849 S-KS-2 S-HCT-15 S-A172 S-NCI-H345 S-NCI-H1299 S-NTERA-2 S-KARPAS-422 S-MDA-MB-435 S-SNU-16 S-NALM-6 S-HCC2157 S-YMB-1 S-NCI-H1915 S-HEL S-SNU-449 S-C170 S-OvCA-432 S-KYSE-270 S-HCC193 S-HEY S-G124 S-MCF-7 S-NCI-H28 S-NCI-H1666 S-NCI-H2023 S-MHH-NB-11 S-OPM-2 S-HEC-1-A S-WiDr S-IM-95m S-REC-1 S-U266B1 S-KYSE-150 S-MX-1 S-NCI-H2122 S-HS-852-T S-HCC1187 S-Panc-03-27 S-HPAC S-OCI-LY-7 S-NCI-H23 S-OCI-LY-3 S-G59 S-PL-21 S-NCI-H2110 S-IPC-298 S-NCI-H2052 S-EKVX S-TCC-PAN2 S-HS-940-T S-NCI-H1568 S-SiHa S-HCC366 S-HUS-T3 S-HCC364 S-OV-90 S-HUS-T4 S-KMS-28BM S-SK-N-SH S-Panc-05-04 S-JEKO-1 S-HCC70 S-RMUG-S S-TK S-HCC78 S-CAL27 S-OvCA-429 S-UACC-893 S-SUIT-2 S-RPMI2650 S-RKN S-RKO S-NCI-H1693 S-WM-115 S-KMS-28PE S-HCC1143 S-ChaGo-K-1 S-L-363 S-HS-936-T S-MT-3 S-PK-59 S-SC-1 S-G142 S-G140 S-G141 S-KMS-27 S-SW-1417 S-OVTOKO S-BEN S-SNU-423 S-KYSE-70 S-U-698-M S-CFPAC-1 S-VMRC-LCD S-HCC827 S-HCC1428 S-RERF-LC-OK S-U-2932 S-OAW42 S-SNU-216 S-105KC S-NCI-H1623 S-KLM-1 S-DMS-454 S-MKN-45 S-UMC-11 S-NCI-H2373 S-WSU-NHL S-KMS-12-BM S-SK-MEL-24 S-NCI-H1651 S-MDA-MB-175-VII S-OVCA-420 S-BFTC-909 S-Panc-08-13 S-MDA-MB-157 S-DLD-1 S-WSU-FSCCL S-SW-527 S-HCC1569 S-PE-CA-PJ15 S-Pfeiffer S-Kasumi-1 S-HS-578T S-SR S-SCC-15 S-GA-10 S-G96 S-HuH-7 S-HCC1806 S-HCC1419 S-KLE S-KYSE-30 S-A4-Fuk S-KMS-12-PE S-Panc-02-03 S-NCI-H522 S-NCI-H520 S-NCI-H2722 S-HS-746T S-NCI-H1355 S-SK-BR-3 S-KYSE-510 S-ML-2 S-OVKATE S-COR-L279 S-PK-45H S-U-2-OS S-NCI-H2795 S-HS-38-T S-EBC-1 S-MG-63 S-NCI-H2126 S-NCI-H1793 S-PA-TU-8902 S-DV-90 S-AGS S-NCI-H1092 S-CW-2 S-NCI-H226 S-Farage S-MDA-MB-330 S-NCI-H187 S-KMS-26 S-C32 S-KMM-1 S-MDA-MB-231 S-A-427 S-MM-1S S-KURAMOCHI S-SW-1990 S-HT-1080 S-COLO-201 S-SUM-229PE S-COLO-205 S-SW-900 S-HCC2688 S-RPMI8226 S-NCI-H1838 S-RERF-LC-KJ S-SK-N-FI S-COLO-853 S-NCI-H358 S-SNU-484 S-COLO-857 S-MHH-ES-1 S-LCLC-103H S-HS-69ST S-NCI-H1703 S-ZR-75-1 S-NCI-H820 S-G111 S-G112 S-G118 S-C3A S-IGR-37 S-SW-620 S-SW-837 S-SW-1463 S-IMR-32 S-PANC-1 S-HS-675-T S-Okajima S-SW-403 S-BT-549 S-NCI-H2198 S-Caov-3 S-HL-60 S-NCI-H2196 S-SNU-638 S-UM-UC-3 S-Panc-04-03 S-Caco-2 S-CHS-212 S-MC116 S-A549 S-NCI-H1770 S-KATO-III S-COLO-800 S-NCI-H2347 S-KMS-21BM S-SCLC-21H S-DMS-53 S-SUS-B15 S-M059J S-M059K S-TYK-nu S-KNS-62 S-HCC12 S-CL-11 S-SNU-5 S-CAL-148 S-SNU-1 S-RT4 S-SCC-25 S-DMS-273 S-HCC1937 S-LS-180 S-BJAB S-ME-1 S-DOK S-G44 S-928-mel S-RC-K8 S-ZR-75-30 S-Caki-2 S-Caki-1 S-ATRFLOX S-Calu-6 S-JJN-3 S-Calu-3 S-Calu-1 S-EFM-192A S-EFM-192C S-EFM-192B S-THS-1 S-HS-895-T S-OVCAR433 S-SKM-1 S-A2058 S-HCC2911 S-BxPC-3 S-PL45 S-HCC44 S-SW-948 S-NCI-H82 S-HCC2270 S-NCI-H1792 S-HT-144 S-COLO-818 S-GTL-16 S-huH-1 S-HCC2279 S-LS1034 S-HCC1171 S-MDA-MB-468 S-JHH-2 S-JHH-1 S-JHH-7 S-HCC1011 S-JHH-5 S-NCI-H460 S-NCI-H1581 S-GP2d S-NCI-H1944 S-A-673 S-BICR-31 S-ACHN S-T-47D S-HGC-27 S-GR-M S-CaR-1 S-HT S-NIH-OVCAR-3 S-NCI-H2804 S-SK23 S-HN S-NU-DUL-1 S-MKN-74 S-NCI-H1734 S-NCI-H810 S-NCI-H2461 S-SJCRH30 S-MDA-MB-415 S-NCI-H510A S-PE01 S-A-375 S-HS-683 S-SK-MEL-30 S-SK-MEL-31 S-NUGC-2 S-NUGC-3 S-GRANTA-519 S-NUGC-4 S-NCI-H2171 S-KELLY S-HCC2302 S-EFM-19 S-COV362 S-DEOC-1 S-KYSE-450 S-NCI-N417 S-SK-CO-1 S-SNU-668 S-NCI-H1648 S-KG-1 S-HCT116 S-143B S-NCI-H929 S-HCC4006 S-HCC2218 S-NCI-H920 S-RAMOS S-KARPAS-1106P S-KYSE-140 S-G84 S-MCF10DCIS-com S-JL-1 S-LXF-289 S-DOHH-2 S-MFM-223 S-KARPAS-620 S-SET-2 S-MEL-HO S-COV413A S-COV413B S-MV-4-11 S-SUM-1315M02 S-OV7 S-Jurkat-CloneE6-1 S-HPAF-II S-SW-982 S-624-mel S-COV434 S-SUM-52PE S-SNU-387 S-HOS-92 S-ES-2 S-YMB-1-E S-HCC1576 S-MOR S-NCI-H1781 S-HCC515 S-BHY S-SNU-601 S-COV318 S-OCI-M2 S-OCI-M1 S-501A S-KMS-34 S-A-431 S-NCI-H2803 S-BICR-78 S-HeLa S-NCI-H2009 S-SW-1116 S-COLO-741 S-A3-KAW S-PLC-PRF-5 S-EFO-27 S-SU-DHL-1 S-SU-DHL-6 S-SU-DHL-4 S-SU-DHL-5 S-CAL-85-1 S-SU-DHL-8 S-HT-115 S-RAJI S-HMY-1 S-NCI-H446 S-NCI-H441 S-KS-3 S-SR-786 S-HES-2 S-769-P S-Toledo S-SUM-159PT S-COLO-829 S-G120 S-G121 S-G122 S-MDA-MB-453 S-NCI-H2228 S-COV504 S-SW-48 S-CPC-N S-DB S-NCI-H1930 S-EB-3 S-SW-1573 S-TC-71 S-COR-L26 S-MOLS-8 S-CAL-120 S-MOLS-2 S-MKN-7 S-SF539 S-SNU-620 S-HCC630 S-KM-12 S-NCI-H2596 S-SU-86-86 S-NCI-H2595 S-HM7 S-NCI-H2452 S-NCI-H847 S-T98G S-SW-480 S-EPLC-272H S-COLO-699 S-SK-OV-3 S-COV644 S-CAL-12T S-MCAS S-G28T S-COLO-792 S-COLO-794 S-NCI-H1048 S-537-MEL S-EJM S-OVSAHO S-BFTC-905 S-KP4 S-HCC1534 S-NCI-H2170 S-HS-255-T S-NCI-H2172 S-NCI-H2073 S-HCC1319 S-LS-174T S-HNT-34 S-YAPC S-MCF10A S-SK-MEL-28 S-RERF-LC-MS S-SK-N-DZ S-NCI-H1373 S-RMG-I S-OVCAR-5 S-OVCAR-4 S-MIA-Paca-2 S-COLO-704 S-OVCAR-8 S-CA46 S-NCI-H146 S-SCLC-22H S-OVISE \ No newline at end of file diff --git a/public/ccle_genentech_2014/case_lists/cases_sv.txt b/public/ccle_genentech_2014/case_lists/cases_sv.txt new file mode 100644 index 000000000..dc40ccf01 --- /dev/null +++ b/public/ccle_genentech_2014/case_lists/cases_sv.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: ccle_genentech_2014 +stable_id: ccle_genentech_2014_sv +case_list_name: Samples with SV data +case_list_description: All samples with SV data (675 samples) +case_list_category: all_cases_with_sv_data +case_list_ids: S-UKE-1 S-SNU-475 S-LS-1 S-G-402 S-HCC1162 S-HCC461 S-NCI-H1435 S-NCI-H716 S-UACC-257 S-COLO-320DM S-C2BBe1 S-PK-45P S-NCI-H1975 S-LoVo S-BICR-22 S-HS-294T S-HepG2 S-COLO-679 S-COLO-678 S-TOV-112D S-AsPC-1 S-MeWo S-A2780 S-UCSD-242l S-BT-20 S-RPMI-7951 S-SK-MEL-5 S-HCC1482 S-DAN-G S-HOS-62 S-SK-MEL-2 S-NCI-H2081 S-NCI-H322T S-SU-DHL-16 S-NCI-H2135 S-HS-766T S-CX-1 S-SCC-3 S-SCC-9 S-DU4475 S-RL S-786-O S-BT-483 S-NCI-H1437 S-SF268 S-SK-MM-2 S-SW-780 S-SNU-719 S-888 S-NCI-H1155 S-HCC4017 S-CI-1 S-HCC4011 S-NCI-H1650 S-NCI-H2030 S-Detroit562 S-CL-40 S-HBL-100 S-DMS-79 S-FaDu S-AN3-CA S-LN-229 S-HCA-7 S-ME-180 S-ABC-1 S-HCC1599 S-BT-474 S-SNU-398 S-WM-266-4 S-LCLC-97TM1 S-CL-34 S-COR-L88 S-C-33A S-HCC1263 S-NCI-H2106 S-HCC1500 S-G22 S-NCI-H196 S-SK-MES-1 S-NCI-H209 S-OCI-LY-19 S-CHL-1 S-OCI-LY-10 S-MDA-MB-134-VI S-NCI-H1573 S-HCC1359 S-NCI-H596 S-HCT-8 S-EVSA-T S-K-562 S-HCC2935 S-LOX-IMVI S-T84 S-NCI-H292 S-HCC60 S-HT-29 S-RCM-1 S-SNU-C1 S-CA-Ski S-PA-TU-8988S S-QGS-1 S-PA-TU-8988T S-NCI-H2810 S-DOR-13 S-SUM-149PT S-SU-DHL-10 S-OUMS-23 S-HCC202 S-NCI-H1882 S-RKO-E6 S-SK-MEL-3 S-RERF-GC-1B S-SK-MEL-1 S-FU97 S-MDA-MB-361 S-KU812 S-G130 S-NCI-H1395 S-A-498 S-MDST8 S-PK-8 S-NCI-H1869 S-23132-87 S-Jiyoye S-HS-Sultan S-C32TG S-PSN1 S-UACC-812 S-SNU-182 S-HS-839-T S-Daudi S-JHH-4 S-OAW28 S-COLO-680N S-NCI-H2369 S-TYK-nu-CS-r S-TK-10 S-KYSE-180 S-HCC1493 S-EB2 S-EB1 S-COLO-783 S-COR-L47 S-PC-3 S-MHH-PREB-1 S-GP5d S-G61 S-KYSE-520 S-HCC1954 S-59M S-LXFL529 S-U-937 S-COLO-206F S-OV56 S-HCC2885 S-MOLM-16 S-H322T S-NCI-H650 S-DU145 S-MDA-MB-436 S-HCC38 S-MS751 S-IM-95 S-HT-55 S-JIMT-1 S-HCC33 S-Capan-2 S-Capan-1 S-RI-1 S-AMO-1 S-CAL51 S-OVMANA S-LOU-NH91 S-CAL54 S-SIG-M5 S-WSU-DLCL2 S-KHM-1B S-RT-112 S-HCC1395 S-LNCAP S-KPL-1 S-G-361 S-HCC-15 S-NCI-H889 S-CCRF-SB S-KCI-MOH1 S-NCI-N87 S-JJ012 S-NCI-H727 S-NAMALWA S-HCC89 S-KPL-4 S-KMS-11 S-UM-UC-1 S-TMD8 S-HS-695T S-OCI-AML2 S-OCI-AML3 S-OCI-AML5 S-BICR-10 S-CAMA-1 S-LN-18 S-MKN-1 S-SK-N-AS S-IGROV-1 S-PA-1 S-OCUM-1 S-COLO-849 S-KS-2 S-HCT-15 S-A172 S-NCI-H345 S-NCI-H1299 S-NTERA-2 S-KARPAS-422 S-MDA-MB-435 S-SNU-16 S-NALM-6 S-HCC2157 S-YMB-1 S-NCI-H1915 S-HEL S-SNU-449 S-C170 S-OvCA-432 S-KYSE-270 S-HCC193 S-HEY S-G124 S-MCF-7 S-NCI-H28 S-NCI-H1666 S-NCI-H2023 S-MHH-NB-11 S-OPM-2 S-HEC-1-A S-WiDr S-IM-95m S-REC-1 S-U266B1 S-KYSE-150 S-MX-1 S-NCI-H2122 S-HS-852-T S-HCC1187 S-Panc-03-27 S-HPAC S-OCI-LY-7 S-NCI-H23 S-OCI-LY-3 S-G59 S-PL-21 S-NCI-H2110 S-IPC-298 S-NCI-H2052 S-EKVX S-TCC-PAN2 S-HS-940-T S-NCI-H1568 S-SiHa S-HCC366 S-HUS-T3 S-HCC364 S-OV-90 S-HUS-T4 S-KMS-28BM S-SK-N-SH S-Panc-05-04 S-JEKO-1 S-HCC70 S-RMUG-S S-TK S-HCC78 S-CAL27 S-OvCA-429 S-UACC-893 S-SUIT-2 S-RPMI2650 S-RKN S-RKO S-NCI-H1693 S-WM-115 S-KMS-28PE S-HCC1143 S-ChaGo-K-1 S-L-363 S-HS-936-T S-MT-3 S-PK-59 S-SC-1 S-G142 S-G140 S-G141 S-KMS-27 S-SW-1417 S-OVTOKO S-BEN S-SNU-423 S-KYSE-70 S-U-698-M S-CFPAC-1 S-VMRC-LCD S-HCC827 S-HCC1428 S-RERF-LC-OK S-U-2932 S-OAW42 S-SNU-216 S-105KC S-NCI-H1623 S-KLM-1 S-DMS-454 S-MKN-45 S-UMC-11 S-NCI-H2373 S-WSU-NHL S-KMS-12-BM S-SK-MEL-24 S-NCI-H1651 S-MDA-MB-175-VII S-OVCA-420 S-BFTC-909 S-Panc-08-13 S-MDA-MB-157 S-DLD-1 S-WSU-FSCCL S-SW-527 S-HCC1569 S-PE-CA-PJ15 S-Pfeiffer S-Kasumi-1 S-HS-578T S-SR S-SCC-15 S-GA-10 S-G96 S-HuH-7 S-HCC1806 S-HCC1419 S-KLE S-KYSE-30 S-A4-Fuk S-KMS-12-PE S-Panc-02-03 S-NCI-H522 S-NCI-H520 S-NCI-H2722 S-HS-746T S-NCI-H1355 S-SK-BR-3 S-KYSE-510 S-ML-2 S-OVKATE S-COR-L279 S-PK-45H S-U-2-OS S-NCI-H2795 S-HS-38-T S-EBC-1 S-MG-63 S-NCI-H2126 S-NCI-H1793 S-PA-TU-8902 S-DV-90 S-AGS S-NCI-H1092 S-CW-2 S-NCI-H226 S-Farage S-MDA-MB-330 S-NCI-H187 S-KMS-26 S-C32 S-KMM-1 S-MDA-MB-231 S-A-427 S-MM-1S S-KURAMOCHI S-SW-1990 S-HT-1080 S-COLO-201 S-SUM-229PE S-COLO-205 S-SW-900 S-HCC2688 S-RPMI8226 S-NCI-H1838 S-RERF-LC-KJ S-SK-N-FI S-COLO-853 S-NCI-H358 S-SNU-484 S-COLO-857 S-MHH-ES-1 S-LCLC-103H S-HS-69ST S-NCI-H1703 S-ZR-75-1 S-NCI-H820 S-G111 S-G112 S-G118 S-C3A S-IGR-37 S-SW-620 S-SW-837 S-SW-1463 S-IMR-32 S-PANC-1 S-HS-675-T S-Okajima S-SW-403 S-BT-549 S-NCI-H2198 S-Caov-3 S-HL-60 S-NCI-H2196 S-SNU-638 S-UM-UC-3 S-Panc-04-03 S-Caco-2 S-CHS-212 S-MC116 S-A549 S-NCI-H1770 S-KATO-III S-COLO-800 S-NCI-H2347 S-KMS-21BM S-SCLC-21H S-DMS-53 S-SUS-B15 S-M059J S-M059K S-TYK-nu S-KNS-62 S-HCC12 S-CL-11 S-SNU-5 S-CAL-148 S-SNU-1 S-RT4 S-SCC-25 S-DMS-273 S-HCC1937 S-LS-180 S-BJAB S-ME-1 S-DOK S-G44 S-928-mel S-RC-K8 S-ZR-75-30 S-Caki-2 S-Caki-1 S-ATRFLOX S-Calu-6 S-JJN-3 S-Calu-3 S-Calu-1 S-EFM-192A S-EFM-192C S-EFM-192B S-THS-1 S-HS-895-T S-OVCAR433 S-SKM-1 S-A2058 S-HCC2911 S-BxPC-3 S-PL45 S-HCC44 S-SW-948 S-NCI-H82 S-HCC2270 S-NCI-H1792 S-HT-144 S-COLO-818 S-GTL-16 S-huH-1 S-HCC2279 S-LS1034 S-HCC1171 S-MDA-MB-468 S-JHH-2 S-JHH-1 S-JHH-7 S-HCC1011 S-JHH-5 S-NCI-H460 S-NCI-H1581 S-GP2d S-NCI-H1944 S-A-673 S-BICR-31 S-ACHN S-T-47D S-HGC-27 S-GR-M S-CaR-1 S-HT S-NIH-OVCAR-3 S-NCI-H2804 S-SK23 S-HN S-NU-DUL-1 S-MKN-74 S-NCI-H1734 S-NCI-H810 S-NCI-H2461 S-SJCRH30 S-MDA-MB-415 S-NCI-H510A S-PE01 S-A-375 S-HS-683 S-SK-MEL-30 S-SK-MEL-31 S-NUGC-2 S-NUGC-3 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a/public/ccle_genentech_2014/data_mutations.txt b/public/ccle_genentech_2014/data_mutations.txt new file mode 100644 index 000000000..5e0fda239 --- /dev/null +++ b/public/ccle_genentech_2014/data_mutations.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:b25cf728e58afc75de3e1e4f31b67f92c727f726f8f5f499661e795a3f26af89 +size 59894698 diff --git a/public/ccle_genentech_2014/data_sv.txt b/public/ccle_genentech_2014/data_sv.txt new file mode 100644 index 000000000..5cbbdd8f7 --- /dev/null +++ b/public/ccle_genentech_2014/data_sv.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:1f0c2caf4cde25314e9b40e2930e4236cd41d0889506bfd561a31022ea9673fa +size 241672 diff --git a/public/ccle_genentech_2014/meta_clinical_patient.txt b/public/ccle_genentech_2014/meta_clinical_patient.txt new file mode 100644 index 000000000..337acfcc6 --- /dev/null +++ b/public/ccle_genentech_2014/meta_clinical_patient.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: ccle_genentech_2014 +data_filename: data_clinical_patient.txt +genetic_alteration_type: CLINICAL +datatype: PATIENT_ATTRIBUTES diff --git a/public/ccle_genentech_2014/meta_clinical_sample.txt b/public/ccle_genentech_2014/meta_clinical_sample.txt new file mode 100644 index 000000000..c5dcd1f43 --- /dev/null +++ b/public/ccle_genentech_2014/meta_clinical_sample.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: ccle_genentech_2014 +data_filename: data_clinical_sample.txt +genetic_alteration_type: CLINICAL +datatype: SAMPLE_ATTRIBUTES diff --git a/public/ccle_genentech_2014/meta_gistic_genes_amp.txt b/public/ccle_genentech_2014/meta_gistic_genes_amp.txt new file mode 100644 index 000000000..c79abebc9 --- /dev/null +++ b/public/ccle_genentech_2014/meta_gistic_genes_amp.txt @@ -0,0 +1,5 @@ +cancer_study_identifier: ccle_genentech_2014 +genetic_alteration_type: GISTIC_GENES_AMP +datatype: Q-VALUE +reference_genome_id: hg19 +data_filename: data_gistic_genes_amp.txt \ No newline at end of file diff --git a/public/ccle_genentech_2014/meta_gistic_genes_del.txt b/public/ccle_genentech_2014/meta_gistic_genes_del.txt new file mode 100644 index 000000000..5cb0ccbbc --- /dev/null +++ b/public/ccle_genentech_2014/meta_gistic_genes_del.txt @@ -0,0 +1,5 @@ +cancer_study_identifier: ccle_genentech_2014 +genetic_alteration_type: GISTIC_GENES_DEL +datatype: Q-VALUE +reference_genome_id: hg19 +data_filename: data_gistic_genes_del.txt \ No newline at end of file diff --git a/public/ccle_genentech_2014/meta_mrna_seq_rpkm.txt b/public/ccle_genentech_2014/meta_mrna_seq_rpkm.txt new file mode 100644 index 000000000..d388489db --- /dev/null +++ b/public/ccle_genentech_2014/meta_mrna_seq_rpkm.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: ccle_genentech_2014 +genetic_alteration_type: MRNA_EXPRESSION +datatype: CONTINUOUS +stable_id: rna_seq_mrna +show_profile_in_analysis_tab: true +profile_name: mRNA expression data +profile_description: mRNA expression RPKM normalized levels. +data_filename: data_mrna_seq_rpkm.txt diff --git a/public/ccle_genentech_2014/meta_mrna_seq_rpkm_zscores_ref_all_samples.txt b/public/ccle_genentech_2014/meta_mrna_seq_rpkm_zscores_ref_all_samples.txt new file mode 100644 index 000000000..17581feb1 --- /dev/null +++ b/public/ccle_genentech_2014/meta_mrna_seq_rpkm_zscores_ref_all_samples.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: ccle_genentech_2014 +genetic_alteration_type: MRNA_EXPRESSION +datatype: Z-SCORE +stable_id: rna_seq_mrna_median_Zscores +show_profile_in_analysis_tab: true +profile_name: mRNA expression z-scores +profile_description: Expression levels z-scores +data_filename: data_mrna_seq_rpkm_zscores_ref_all_samples.txt diff --git a/public/ccle_genentech_2014/meta_mutations.txt b/public/ccle_genentech_2014/meta_mutations.txt new file mode 100644 index 000000000..a07604446 --- /dev/null +++ b/public/ccle_genentech_2014/meta_mutations.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: ccle_genentech_2014 +data_filename: data_mutations.txt +stable_id: mutations +genetic_alteration_type: MUTATION_EXTENDED +datatype: MAF +show_profile_in_analysis_tab: TRUE +profile_name: Mutations data +profile_description: Mutation data from single-nucleotide polymorphism (SNP) array analysis. diff --git a/public/ccle_genentech_2014/meta_study.txt b/public/ccle_genentech_2014/meta_study.txt new file mode 100644 index 000000000..ff7e9f028 --- /dev/null +++ b/public/ccle_genentech_2014/meta_study.txt @@ -0,0 +1,7 @@ +cancer_study_identifier: ccle_genentech_2014 +type_of_cancer: mixed +name: Cancer Cell Line Encyclopedia (Genentech, Nat biotech 2014) +short_name: CCLE (Genentech 2014) +description: Single-nucleotide polymorphism (SNP) array analysis and RNA sequencing and of 675 mixed human cancer cell lines from the Cancer Cell Line Encyclopedia. Out of the 675 cell lines, the Genentech cohort includes 148 lines that were not investigated in other CCLE studies. +pmid: 25485619 +citation: Klijn, Christiaan et al. Nature biotechnology 2014 diff --git a/public/ccle_genentech_2014/meta_sv.txt b/public/ccle_genentech_2014/meta_sv.txt new file mode 100644 index 000000000..085e4273f --- /dev/null +++ b/public/ccle_genentech_2014/meta_sv.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: ccle_genentech_2014 +data_filename: data_sv.txt +stable_id: structural_variants +genetic_alteration_type: STRUCTURAL_VARIANT +datatype: SV +show_profile_in_analysis_tab: TRUE +profile_name: Structural variants data +profile_description: Structural variant data computed from gene fusion data using the fusion-to-sv-converter script from the Data Curation Tools. diff --git a/public/crc_orion_2024/case_lists/cases_all.txt b/public/crc_orion_2024/case_lists/cases_all.txt new file mode 100644 index 000000000..21ab96ae5 --- /dev/null +++ b/public/crc_orion_2024/case_lists/cases_all.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: crc_orion_2024 +stable_id: crc_orion_2024_all +case_list_name: All samples +case_list_description: All samples (74 samples) +case_list_category: all_cases_in_study +case_list_ids: C71 C70 C73 C72 C74 C39 C38 C35 C34 C37 C36 C31 C30 C33 C32 C9 C8 C3 C2 C1 C7 C6 C5 C4 C22 C23 C20 C21 C26 C27 C68 C69 C66 C67 C64 C65 C62 C63 C60 C61 C29 C57 C56 C55 C54 C53 C52 C51 C50 C59 C58 C19 C18 C13 C12 C11 C10 C17 C16 C15 C14 C24 C25 C28 C44 C45 C46 C47 C40 C41 C42 C43 C48 C49 diff --git a/public/crc_orion_2024/case_lists/cases_cna.txt b/public/crc_orion_2024/case_lists/cases_cna.txt new file mode 100644 index 000000000..e187e0711 --- /dev/null +++ b/public/crc_orion_2024/case_lists/cases_cna.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: crc_orion_2024 +stable_id: crc_orion_2024_cna +case_list_name: Samples with CNA data +case_list_description: Samples with CNA data (74 samples) +case_list_category: all_cases_with_cna_data +case_list_ids: C71 C70 C73 C72 C74 C39 C38 C35 C34 C37 C36 C31 C30 C33 C32 C9 C8 C3 C2 C1 C7 C6 C5 C4 C22 C23 C20 C21 C26 C27 C68 C69 C66 C67 C64 C65 C62 C63 C60 C61 C29 C57 C56 C55 C54 C53 C52 C51 C50 C59 C58 C19 C18 C13 C12 C11 C10 C17 C16 C15 C14 C24 C25 C28 C44 C45 C46 C47 C40 C41 C42 C43 C48 C49 \ No newline at end of file diff --git a/public/crc_orion_2024/case_lists/cases_cnaseq.txt b/public/crc_orion_2024/case_lists/cases_cnaseq.txt new file mode 100644 index 000000000..e6070ee43 --- /dev/null +++ b/public/crc_orion_2024/case_lists/cases_cnaseq.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: crc_orion_2024 +stable_id: crc_orion_2024_cnaseq +case_list_name: Samples with mutation and CNA data +case_list_description: Samples with mutation and CNA data (74 samples) +case_list_category: all_cases_with_mutation_and_cna_data +case_list_ids: C71 C70 C73 C72 C74 C39 C38 C35 C34 C37 C36 C31 C30 C33 C32 C9 C8 C3 C2 C1 C7 C6 C5 C4 C22 C23 C20 C21 C26 C27 C68 C69 C66 C67 C64 C65 C62 C63 C60 C61 C29 C57 C56 C55 C54 C53 C52 C51 C50 C59 C58 C19 C18 C13 C12 C11 C10 C17 C16 C15 C14 C24 C25 C28 C44 C45 C46 C47 C40 C41 C42 C43 C48 C49 \ No newline at end of file diff --git a/public/crc_orion_2024/case_lists/cases_sequenced.txt b/public/crc_orion_2024/case_lists/cases_sequenced.txt new file mode 100644 index 000000000..41e348efc --- /dev/null +++ b/public/crc_orion_2024/case_lists/cases_sequenced.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: crc_orion_2024 +stable_id: crc_orion_2024_sequenced +case_list_name: Samples with mutation data +case_list_description: Samples with mutation data (74 samples) +case_list_category: all_cases_with_mutation_data +case_list_ids: C71 C70 C73 C72 C74 C39 C38 C35 C34 C37 C36 C31 C30 C33 C32 C9 C8 C3 C2 C1 C7 C6 C5 C4 C22 C23 C20 C21 C26 C27 C68 C69 C66 C67 C64 C65 C62 C63 C60 C61 C29 C57 C56 C55 C54 C53 C52 C51 C50 C59 C58 C19 C18 C13 C12 C11 C10 C17 C16 C15 C14 C24 C25 C28 C44 C45 C46 C47 C40 C41 C42 C43 C48 C49 \ No newline at end of file diff --git a/public/crc_orion_2024/case_lists/cases_sv.txt b/public/crc_orion_2024/case_lists/cases_sv.txt new file mode 100644 index 000000000..e7b6ce3f1 --- /dev/null +++ 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b/public/crc_orion_2024/data_gene_panel_DFCI-ONCOPANEL-3.1.txt new file mode 100644 index 000000000..d430100d4 --- /dev/null +++ b/public/crc_orion_2024/data_gene_panel_DFCI-ONCOPANEL-3.1.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:234b3c34162ee80af116302ae4c58d396679302456da4a669599632281c21a11 +size 2705 diff --git a/public/crc_orion_2024/data_gene_panel_DFCI-ONCOPANEL-3.txt b/public/crc_orion_2024/data_gene_panel_DFCI-ONCOPANEL-3.txt new file mode 100644 index 000000000..adb1957f7 --- /dev/null +++ b/public/crc_orion_2024/data_gene_panel_DFCI-ONCOPANEL-3.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:79894610a5a39f88376f3935765ddbb16342ecdee170295dede09996eb26999b +size 2701 diff --git a/public/crc_orion_2024/data_gene_panel_matrix.txt b/public/crc_orion_2024/data_gene_panel_matrix.txt new file mode 100644 index 000000000..6b2ab10e9 --- /dev/null +++ b/public/crc_orion_2024/data_gene_panel_matrix.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:ce8c7d809470c0cdcd956d90f89baa96404a67c7182a59d5cbe6f044b8560753 +size 4158 diff --git a/public/crc_orion_2024/data_mutations.txt b/public/crc_orion_2024/data_mutations.txt new file mode 100644 index 000000000..1dcb807cd --- /dev/null +++ b/public/crc_orion_2024/data_mutations.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:01348534271bcfea69887ae6353c9df5fdaabfacfbb0993d6a1e41701b896986 +size 246380 diff --git a/public/crc_orion_2024/data_resource_definition.txt b/public/crc_orion_2024/data_resource_definition.txt new file mode 100644 index 000000000..b8b838d92 --- /dev/null +++ b/public/crc_orion_2024/data_resource_definition.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:d192ac99f1f0c7591417fa181e1f6f393b7e6cfec10f14cda891ff4a22cb0f14 +size 117 diff --git a/public/crc_orion_2024/data_resource_sample.txt b/public/crc_orion_2024/data_resource_sample.txt new file mode 100644 index 000000000..64621d3cb --- /dev/null +++ b/public/crc_orion_2024/data_resource_sample.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:51c7ed7993c0ef4485c6501ffccafc6958338c76497393c005aa2fcb80551254 +size 3720 diff --git a/public/crc_orion_2024/data_sv.txt b/public/crc_orion_2024/data_sv.txt new file mode 100644 index 000000000..f054bc068 --- /dev/null +++ b/public/crc_orion_2024/data_sv.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:371d0455f10922d649af4063bbd145602e025a65ad1fcbf3174de2b6ac18dc3e +size 1215 diff --git a/public/crc_orion_2024/meta_cell_density.txt b/public/crc_orion_2024/meta_cell_density.txt new file mode 100644 index 000000000..ab9194f5c --- /dev/null +++ b/public/crc_orion_2024/meta_cell_density.txt @@ -0,0 +1,12 @@ +cancer_study_identifier: crc_orion_2024 +genetic_alteration_type: GENERIC_ASSAY +generic_assay_type: CELL_DENSITY +datatype: LIMIT-VALUE +stable_id: cell_density +profile_name: Neighborhood Cell Density (cells/mm2) +profile_description: Local neighborhood density (in cells/mm2) for each cell type within a 50 micron radius +data_filename: data_cell_density.txt +show_profile_in_analysis_tab: true +pivot_threshold_value: 0 +value_sort_order: ASC +generic_entity_meta_properties: NAME diff --git a/public/crc_orion_2024/meta_clinical_patient.txt b/public/crc_orion_2024/meta_clinical_patient.txt new file mode 100644 index 000000000..7ccffc882 --- /dev/null +++ b/public/crc_orion_2024/meta_clinical_patient.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: crc_orion_2024 +genetic_alteration_type: CLINICAL +datatype: PATIENT_ATTRIBUTES +data_filename: data_patients.txt diff --git a/public/crc_orion_2024/meta_clinical_sample.txt b/public/crc_orion_2024/meta_clinical_sample.txt new file mode 100644 index 000000000..2349e6768 --- /dev/null +++ b/public/crc_orion_2024/meta_clinical_sample.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: crc_orion_2024 +genetic_alteration_type: CLINICAL +datatype: SAMPLE_ATTRIBUTES +data_filename: data_samples.txt diff --git a/public/crc_orion_2024/meta_cna.txt b/public/crc_orion_2024/meta_cna.txt new file mode 100644 index 000000000..b5b65b69a --- /dev/null +++ b/public/crc_orion_2024/meta_cna.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: crc_orion_2024 +genetic_alteration_type: COPY_NUMBER_ALTERATION +datatype: DISCRETE +stable_id: cna +show_profile_in_analysis_tab: true +profile_description: Copy Number data from OncoPanel Sequencing. +profile_name: Copy Number +data_filename: data_cna.txt diff --git a/public/crc_orion_2024/meta_gene_panel_matrix.txt b/public/crc_orion_2024/meta_gene_panel_matrix.txt new file mode 100755 index 000000000..6134ecd9b --- /dev/null +++ b/public/crc_orion_2024/meta_gene_panel_matrix.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: crc_orion_2024 +genetic_alteration_type: GENE_PANEL_MATRIX +datatype: GENE_PANEL_MATRIX +data_filename: data_gene_panel_matrix.txt diff --git a/public/crc_orion_2024/meta_mutations.txt b/public/crc_orion_2024/meta_mutations.txt new file mode 100644 index 000000000..5e7ee273d --- /dev/null +++ b/public/crc_orion_2024/meta_mutations.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: crc_orion_2024 +stable_id: mutations +profile_name: Mutations +profile_description: Seq data. +genetic_alteration_type: MUTATION_EXTENDED +datatype: MAF +data_filename: data_mutations.txt +show_profile_in_analysis_tab: true \ No newline at end of file diff --git a/public/crc_orion_2024/meta_resource_definition.txt b/public/crc_orion_2024/meta_resource_definition.txt new file mode 100644 index 000000000..85ec0c847 --- /dev/null +++ b/public/crc_orion_2024/meta_resource_definition.txt @@ -0,0 +1,3 @@ +cancer_study_identifier: crc_orion_2024 +resource_type: DEFINITION +data_filename: data_resource_definition.txt \ No newline at end of file diff --git a/public/crc_orion_2024/meta_resource_sample.txt b/public/crc_orion_2024/meta_resource_sample.txt new file mode 100644 index 000000000..d8ab7abeb --- /dev/null +++ b/public/crc_orion_2024/meta_resource_sample.txt @@ -0,0 +1,3 @@ +cancer_study_identifier: crc_orion_2024 +resource_type: SAMPLE +data_filename: data_resource_sample.txt \ No newline at end of file diff --git a/public/crc_orion_2024/meta_study.txt b/public/crc_orion_2024/meta_study.txt new file mode 100644 index 000000000..2ef8bbe1f --- /dev/null +++ b/public/crc_orion_2024/meta_study.txt @@ -0,0 +1,6 @@ +type_of_cancer: bowel +cancer_study_identifier: crc_orion_2024 +name: Colorectal Adenocarcinoma (DFCI/Orion, BioRxiv 2024) +description: Combined spatial and targeted genomic analysis of 74 colon and rectal cancers. +pmid: 39386479 +citation: Wala, Jeremiah et al. bioRxiv 2024 \ No newline at end of file diff --git a/public/crc_orion_2024/meta_sv.txt b/public/crc_orion_2024/meta_sv.txt new file mode 100644 index 000000000..57d22015a --- /dev/null +++ b/public/crc_orion_2024/meta_sv.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: crc_orion_2024 +genetic_alteration_type: STRUCTURAL_VARIANT +datatype: SV +stable_id: structural_variants +profile_description: SV data. +show_profile_in_analysis_tab: true +profile_name: SV Data +data_filename: data_sv.txt diff --git a/public/crc_sysucc_2022/README.md b/public/crc_sysucc_2022/README.md new file mode 100644 index 000000000..1715158e6 --- /dev/null +++ b/public/crc_sysucc_2022/README.md @@ -0,0 +1,11 @@ +README + +* Clinical Data: + Retrieved from Supplementary Data 2 + Data filename: "Clinical and genomic information of colorectal cancer patients in SYSUCC cohort." + +* Mutation Data + Retrieved from the ChangKang Project (https://changkang.hapyun.com/download/) + Data filename: "SYSUCC_CRC_Mutation_withSilent" + Mutation data provided by the paper includes both synonymous and non-synonymous mutations + \ No newline at end of file diff --git a/public/crc_sysucc_2022/case_lists/cases_all.txt b/public/crc_sysucc_2022/case_lists/cases_all.txt new file mode 100644 index 000000000..69f45372f --- /dev/null +++ b/public/crc_sysucc_2022/case_lists/cases_all.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: crc_sysucc_2022 +stable_id: crc_sysucc_2022_all +case_list_name: All samples +case_list_description: All samples (1015 samples) +case_list_category: all_cases_in_study +case_list_ids: CRC652_NT CRC476_NT CRC730_NT CRC165_NT CRC176_NT CRC967_NT CRC451_NT CRC858_NT CRC277_NT CRC881_NT CRC958_NT CRC112_NT CRC937_NT CRC289_NT CRC132_NT CRC951_NT CRC284_NT CRC692_NT CRC511_NT CRC479_NT CRC38_NT CRC533_NT CRC296_NT CRC501_NT CRC1196_NT CRC515_NT CRC695_NT CRC513_NT CRC516_NT CRC514_NT CRC517_NT CRC519_NT CRC518_NT CRC520_NT CRC521_NT CRC524_NT CRC523_NT CRC525_NT CRC522_NT CRC526_NT CRC528_NT CRC529_NT CRC530_NT CRC532_NT CRC534_NT CRC535_NT CRC549_NT CRC536_NT CRC537_NT CRC538_NT CRC541_NT CRC539_NT CRC543_NT CRC540_NT CRC542_NT CRC545_NT CRC544_NT CRC546_NT CRC548_NT CRC551_NT CRC550_NT CRC552_NT CRC488_NT CRC512_NT CRC547_NT CRC510_NT CRC508_NT CRC509_NT CRC507_NT CRC500_NT CRC499_NT CRC503_NT CRC496_NT CRC504_NT CRC505_NT CRC493_NT CRC502_NT CRC498_NT CRC495_NT CRC494_NT CRC491_NT CRC492_NT CRC490_NT CRC489_NT CRC487_NT CRC484_NT CRC485_NT CRC483_NT CRC486_NT CRC480_NT CRC482_NT CRC481_NT CRC478_NT CRC470_NT CRC473_NT CRC471_NT CRC474_NT CRC475_NT CRC472_NT CRC467_NT CRC468_NT CRC462_NT CRC461_NT CRC459_NT CRC452_NT CRC456_NT CRC458_NT CRC453_NT CRC448_NT CRC457_NT CRC455_NT CRC450_NT CRC449_NT CRC447_NT CRC446_NT CRC444_NT CRC442_NT CRC443_NT CRC441_NT CRC439_NT CRC428_NT CRC434_NT CRC438_NT CRC437_NT CRC429_NT CRC412_NT CRC435_NT CRC436_NT CRC431_NT CRC433_NT CRC427_NT CRC432_NT CRC430_NT CRC425_NT CRC423_NT CRC424_NT CRC426_NT CRC422_NT CRC417_NT CRC419_NT CRC414_NT CRC418_NT CRC411_NT CRC605_NT CRC413_NT CRC408_NT CRC415_NT CRC416_NT CRC402_NT CRC403_NT CRC410_NT CRC409_NT CRC405_NT CRC404_NT CRC407_NT CRC406_NT CRC401_NT CRC398_NT CRC400_NT CRC399_NT CRC349_NT CRC393_NT CRC421_NT CRC396_NT CRC394_NT CRC390_NT CRC397_NT CRC391_NT CRC395_NT CRC420_NT CRC389_NT CRC392_NT CRC387_NT CRC383_NT CRC388_NT CRC385_NT CRC386_NT CRC339_NT CRC384_NT CRC379_NT CRC338_NT CRC380_NT CRC337_NT CRC336_NT CRC334_NT CRC332_NT CRC333_NT CRC331_NT CRC335_NT CRC324_NT CRC327_NT CRC329_NT CRC325_NT CRC330_NT CRC328_NT CRC326_NT CRC323_NT CRC321_NT CRC378_NT CRC322_NT CRC318_NT CRC822_NT CRC314_NT CRC320_NT CRC317_NT CRC316_NT CRC376_NT CRC371_NT CRC373_NT CRC749_NT CRC365_NT CRC370_NT CRC367_NT CRC360_NT CRC358_NT CRC361_NT CRC350_NT CRC357_NT CRC363_NT CRC354_NT CRC343_NT CRC346_NT CRC348_NT CRC341_NT CRC340_NT CRC356_NT CRC342_NT CRC359_NT CRC6_NT CRC351_NT CRC362_NT CRC345_NT CRC347_NT CRC368_NT CRC344_NT CRC375_NT CRC369_NT CRC364_NT CRC374_NT CRC366_NT CRC310_NT CRC313_NT CRC312_NT CRC307_NT CRC305_NT CRC311_NT CRC308_NT CRC306_NT CRC309_NT CRC304_NT CRC300_NT CRC299_NT CRC302_NT CRC297_NT CRC301_NT CRC295_NT CRC293_NT CRC294_NT CRC292_NT CRC298_NT CRC282_NT CRC291_NT CRC290_NT CRC279_NT CRC286_NT CRC276_NT CRC273_NT CRC275_NT CRC272_NT CRC271_NT CRC274_NT CRC269_NT CRC288_NT CRC270_NT CRC267_NT CRC268_NT CRC266_NT CRC287_NT CRC263_NT CRC262_NT CRC264_NT CRC265_NT CRC260_NT CRC258_NT CRC261_NT CRC259_NT CRC278_NT CRC285_NT CRC283_NT CRC281_NT CRC244_NT CRC255_NT CRC256_NT CRC257_NT CRC254_NT CRC250_NT CRC252_NT CRC253_NT CRC251_NT CRC249_NT CRC247_NT CRC200_NT CRC241_NT CRC246_NT CRC248_NT CRC245_NT CRC243_NT CRC242_NT CRC235_NT CRC240_NT CRC237_NT CRC239_NT CRC238_NT CRC236_NT CRC234_NT CRC232_NT CRC230_NT CRC227_NT CRC229_NT CRC233_NT CRC231_NT CRC226_NT CRC222_NT CRC223_NT CRC224_NT CRC218_NT CRC217_NT CRC220_NT CRC221_NT CRC219_NT CRC214_NT CRC108_NT CRC212_NT CRC215_NT CRC216_NT CRC211_NT CRC210_NT CRC209_NT CRC206_NT CRC208_NT CRC205_NT CRC198_NT CRC201_NT CRC203_NT CRC202_NT CRC197_NT CRC199_NT CRC768_NT CRC190_NT CRC193_NT CRC194_NT CRC196_NT CRC185_NT CRC195_NT CRC192_NT CRC191_NT CRC187_NT CRC188_NT CRC182_NT CRC180_NT CRC179_NT CRC184_NT CRC183_NT CRC181_NT CRC177_NT CRC172_NT CRC175_NT CRC173_NT CRC174_NT CRC171_NT CRC170_NT CRC169_NT CRC167_NT CRC168_NT CRC164_NT CRC162_NT CRC163_NT CRC160_NT CRC159_NT CRC161_NT CRC157_NT CRC158_NT CRC156_NT CRC787_NT CRC825_NT CRC798_NT CRC757_NT CRC779_NT CRC817_NT CRC809_NT CRC796_NT CRC801_NT CRC794_NT CRC820_NT CRC760_NT CRC784_NT CRC765_NT CRC815_NT CRC764_NT CRC776_NT CRC781_NT CRC813_NT CRC783_NT CRC821_NT CRC790_NT CRC759_NT CRC789_NT CRC747_NT CRC769_NT CRC754_NT CRC751_NT CRC712_NT CRC766_NT CRC762_NT CRC810_NT CRC777_NT CRC799_NT CRC753_NT CRC819_NT CRC808_NT CRC812_NT CRC797_NT CRC778_NT CRC823_NT CRC772_NT CRC814_NT CRC807_NT CRC788_NT CRC786_NT CRC767_NT CRC802_NT CRC805_NT CRC806_NT CRC69_NT CRC746_NT CRC811_NT CRC804_NT CRC785_NT CRC770_NT CRC756_NT CRC761_NT CRC763_NT CRC818_NT CRC775_NT CRC145_NT CRC151_NT CRC791_NT CRC773_NT CRC774_NT CRC793_NT CRC153_NT CRC824_NT CRC795_NT CRC155_NT CRC800_NT CRC154_NT CRC146_NT CRC152_NT CRC148_NT CRC150_NT CRC143_NT CRC141_NT CRC147_NT CRC139_NT CRC142_NT CRC138_NT CRC137_NT CRC140_NT CRC136_NT CRC133_NT CRC135_NT CRC130_NT CRC129_NT CRC131_NT CRC121_NT CRC128_NT CRC126_NT CRC125_NT CRC118_NT CRC127_NT CRC120_NT CRC123_NT CRC106_NT CRC122_NT CRC111_NT CRC115_NT CRC116_NT CRC119_NT CRC117_NT CRC107_NT CRC113_NT CRC114_NT CRC109_NT CRC97_NT CRC110_NT CRC104_NT CRC105_NT CRC98_NT CRC99_NT CRC100_NT CRC96_NT CRC103_NT CRC95_NT CRC101_NT CRC93_NT CRC94_NT CRC79_NT CRC89_NT CRC87_NT CRC90_NT CRC91_NT CRC862_NT CRC88_NT CRC83_NT CRC85_NT CRC84_NT CRC86_NT CRC76_NT CRC62_NT CRC81_NT CRC80_NT CRC82_NT CRC78_NT CRC75_NT CRC77_NT CRC74_NT CRC72_NT CRC73_NT CRC562_NT CRC71_NT CRC70_NT CRC68_NT CRC855_NT CRC65_NT CRC64_NT CRC67_NT CRC66_NT CRC61_NT CRC63_NT CRC54_NT CRC55_NT CRC58_NT CRC56_NT CRC60_NT CRC57_NT CRC46_NT CRC52_NT CRC59_NT CRC49_NT CRC48_NT CRC51_NT CRC47_NT CRC40_NT CRC42_NT CRC45_NT CRC39_NT CRC37_NT CRC33_NT CRC36_NT CRC35_NT CRC31_NT CRC34_NT CRC30_NT CRC27_NT CRC24_NT CRC19_NT CRC28_NT CRC22_NT CRC12_NT CRC20_NT CRC23_NT CRC21_NT CRC18_NT CRC13_NT CRC15_NT CRC14_NT CRC11_NT CRC8_NT CRC16_NT CRC10_NT CRC588_NT CRC5_NT CRC9_NT CRC4_NT CRC1_NT CRC7_NT CRC606_NT CRC2_NT CRC3_NT CRC607_NT CRC601_NT CRC600_NT CRC599_NT CRC603_NT CRC598_NT CRC602_NT CRC594_NT CRC597_NT CRC604_NT CRC596_NT CRC590_NT CRC591_NT CRC595_NT CRC592_NT CRC593_NT CRC589_NT CRC585_NT CRC586_NT CRC587_NT CRC582_NT CRC583_NT CRC581_NT CRC584_NT CRC576_NT CRC578_NT CRC580_NT CRC577_NT CRC575_NT CRC574_NT CRC579_NT CRC719_NT CRC573_NT CRC571_NT CRC568_NT CRC569_NT CRC567_NT CRC566_NT CRC564_NT CRC558_NT CRC559_NT CRC673_NT CRC556_NT CRC563_NT CRC560_NT CRC561_NT CRC555_NT CRC557_NT CRC554_NT CRC671_NT CRC553_NT CRC693_NT CRC675_NT CRC690_NT CRC678_NT CRC683_NT CRC686_NT CRC685_NT CRC682_NT CRC677_NT CRC680_NT CRC674_NT CRC694_NT CRC679_NT CRC676_NT CRC681_NT CRC684_NT CRC672_NT CRC717_NT CRC691_NT CRC716_NT CRC670_NT CRC864_NT CRC669_NT CRC870_NT CRC634_NT CRC647_NT CRC638_NT CRC654_NT CRC861_NT CRC651_NT CRC646_NT CRC860_NT CRC867_NT CRC873_NT CRC872_NT CRC623_NT CRC866_NT CRC865_NT CRC667_NT CRC871_NT CRC863_NT CRC868_NT CRC618_NT CRC616_NT CRC620_NT CRC706_NT CRC708_NT CRC710_NT CRC641_NT CRC707_NT CRC709_NT CRC657_NT CRC714_NT CRC711_NT CRC666_NT CRC639_NT CRC715_NT CRC661_NT CRC642_NT CRC617_NT CRC625_NT CRC619_NT CRC640_NT CRC648_NT CRC649_NT CRC664_NT CRC663_NT CRC660_NT CRC629_NT CRC650_NT CRC632_NT CRC659_NT CRC628_NT CRC622_NT CRC668_NT CRC631_NT CRC615_NT CRC665_NT CRC614_NT CRC658_NT CRC662_NT CRC723_NT CRC636_NT CRC633_NT CRC635_NT CRC627_NT CRC644_NT CRC643_NT CRC656_NT CRC645_NT CRC726_NT CRC704_NT CRC697_NT CRC655_NT CRC740_NT CRC702_NT CRC703_NT CRC724_NT CRC696_NT CRC869_NT CRC743_NT CRC698_NT CRC727_NT CRC699_NT CRC734_NT CRC744_NT CRC721_NT CRC745_NT CRC700_NT CRC859_NT CRC722_NT CRC705_NT CRC701_NT CRC856_NT CRC725_NT CRC857_NT CRC832_NT CRC732_NT CRC848_NT CRC739_NT CRC846_NT CRC608_NT CRC838_NT CRC850_NT CRC840_NT CRC733_NT CRC829_NT CRC852_NT CRC834_NT CRC826_NT CRC613_NT CRC612_NT CRC720_NT CRC736_NT CRC609_NT CRC611_NT CRC742_NT CRC828_NT CRC849_NT CRC827_NT CRC844_NT CRC843_NT CRC830_NT CRC853_NT CRC847_NT CRC833_NT CRC854_NT CRC837_NT CRC999_NT CRC842_NT CRC835_NT CRC997_NT CRC831_NT CRC998_NT CRC996_NT CRC927_NT CRC943_NT CRC928_NT CRC971_NT CRC945_NT CRC922_NT CRC924_NT CRC916_NT CRC980_NT CRC939_NT CRC920_NT CRC973_NT CRC947_NT CRC990_NT CRC930_NT CRC929_NT CRC969_NT CRC949_NT CRC923_NT CRC993_NT CRC935_NT CRC970_NT CRC959_NT CRC931_NT CRC942_NT CRC984_NT CRC963_NT CRC994_NT CRC948_NT CRC991_NT CRC966_NT CRC944_NT CRC988_NT CRC977_NT CRC968_NT CRC981_NT CRC964_NT CRC992_NT CRC954_NT CRC978_NT CRC950_NT CRC955_NT CRC979_NT CRC932_NT CRC956_NT CRC938_NT CRC983_NT CRC985_NT CRC961_NT CRC982_NT CRC925_NT CRC940_NT CRC919_NT CRC975_NT CRC957_NT CRC962_NT CRC995_NT CRC946_NT CRC934_NT CRC989_NT CRC941_NT CRC888_NT CRC972_NT CRC891_NT CRC965_NT CRC910_NT CRC880_NT CRC889_NT CRC885_NT CRC894_NT CRC904_NT CRC914_NT CRC875_NT CRC878_NT CRC893_NT CRC882_NT CRC906_NT CRC886_NT CRC901_NT CRC915_NT CRC879_NT CRC874_NT CRC895_NT CRC877_NT CRC884_NT CRC887_NT CRC899_NT CRC898_NT CRC911_NT CRC890_NT CRC912_NT CRC897_NT CRC903_NT CRC1007_NT CRC1182_NT CRC1114_NT CRC1191_NT CRC1077_NT CRC1004_NT CRC1046_NT CRC1095_NT CRC1120_NT CRC1055_NT CRC1017_NT CRC1147_NT CRC1041_NT CRC1039_NT CRC1086_NT CRC1238_NT CRC1213_NT CRC1185_NT CRC1157_NT CRC1140_NT CRC1211_NT CRC1102_NT CRC1083_NT CRC1030_NT CRC1139_NT CRC1258_NT CRC1146_NT CRC1093_NT CRC1080_NT CRC1037_NT CRC1079_NT CRC1036_NT CRC1142_NT CRC1042_NT CRC1023_NT CRC1005_NT CRC1058_NT CRC1022_NT CRC1183_NT CRC1118_NT CRC1081_NT CRC1119_NT CRC1020_NT CRC1160_NT CRC1001_NT CRC1220_NT CRC1078_NT CRC1201_NT CRC1052_NT CRC1230_NT CRC1214_NT CRC1169_NT CRC1026_NT CRC1176_NT CRC1221_NT CRC1158_NT CRC1082_NT CRC1018_NT CRC1127_NT CRC1163_NT CRC1148_NT CRC1025_NT CRC1129_NT CRC1125_NT CRC1031_NT CRC1224_NT CRC1141_NT CRC1227_NT CRC1024_NT CRC1204_NT CRC1225_NT CRC1155_NT CRC1053_NT CRC1153_NT CRC1099_NT CRC1319_NT CRC1075_NT CRC1106_NT CRC1100_NT CRC1115_NT CRC1156_NT CRC1101_NT CRC1003_NT CRC1074_NT CRC1057_NT CRC1096_NT CRC1048_NT CRC1012_NT CRC1068_NT CRC1071_NT CRC1067_NT CRC1283_NT CRC1002_NT CRC1034_NT CRC1070_NT CRC1033_NT CRC1063_NT CRC1066_NT CRC1059_NT CRC1047_NT CRC1045_NT CRC1134_NT CRC1065_NT CRC1123_NT CRC1073_NT CRC1061_NT CRC1016_NT CRC1072_NT CRC1097_NT CRC1177_NT CRC1137_NT CRC1122_NT CRC1060_NT CRC1089_NT CRC1006_NT CRC1032_NT CRC1237_NT CRC1028_NT CRC1296_NT CRC1234_NT CRC1044_NT CRC1021_NT CRC1109_NT CRC1107_NT CRC1135_NT CRC1029_NT CRC1013_NT \ No newline at end of file diff --git a/public/crc_sysucc_2022/case_lists/cases_cna.txt b/public/crc_sysucc_2022/case_lists/cases_cna.txt new file mode 100644 index 000000000..8e3eee7d1 --- /dev/null +++ b/public/crc_sysucc_2022/case_lists/cases_cna.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: crc_sysucc_2022 +stable_id: crc_sysucc_2022_cna +case_list_name: Samples with CNA data +case_list_description: Samples with CNA data (1015 samples) +case_list_category: all_cases_with_cna_data +case_list_ids: CRC652_NT CRC476_NT CRC730_NT CRC165_NT CRC176_NT CRC967_NT CRC451_NT CRC858_NT CRC277_NT CRC881_NT CRC958_NT CRC112_NT CRC937_NT CRC289_NT CRC132_NT CRC951_NT CRC284_NT CRC692_NT CRC511_NT CRC479_NT CRC38_NT CRC533_NT CRC296_NT CRC501_NT CRC1196_NT CRC515_NT CRC695_NT CRC513_NT CRC516_NT CRC514_NT CRC517_NT CRC519_NT CRC518_NT CRC520_NT CRC521_NT CRC524_NT CRC523_NT CRC525_NT CRC522_NT CRC526_NT CRC528_NT CRC529_NT CRC530_NT CRC532_NT CRC534_NT CRC535_NT CRC549_NT CRC536_NT CRC537_NT CRC538_NT CRC541_NT CRC539_NT CRC543_NT CRC540_NT CRC542_NT CRC545_NT CRC544_NT CRC546_NT CRC548_NT CRC551_NT CRC550_NT CRC552_NT CRC488_NT CRC512_NT CRC547_NT CRC510_NT CRC508_NT CRC509_NT CRC507_NT CRC500_NT CRC499_NT CRC503_NT CRC496_NT CRC504_NT CRC505_NT CRC493_NT CRC502_NT CRC498_NT CRC495_NT CRC494_NT CRC491_NT CRC492_NT CRC490_NT CRC489_NT CRC487_NT CRC484_NT CRC485_NT CRC483_NT CRC486_NT CRC480_NT CRC482_NT CRC481_NT CRC478_NT CRC470_NT CRC473_NT CRC471_NT CRC474_NT CRC475_NT CRC472_NT CRC467_NT CRC468_NT CRC462_NT CRC461_NT CRC459_NT CRC452_NT CRC456_NT CRC458_NT CRC453_NT CRC448_NT CRC457_NT CRC455_NT CRC450_NT CRC449_NT CRC447_NT CRC446_NT CRC444_NT CRC442_NT CRC443_NT CRC441_NT CRC439_NT CRC428_NT CRC434_NT CRC438_NT CRC437_NT CRC429_NT CRC412_NT CRC435_NT CRC436_NT CRC431_NT CRC433_NT CRC427_NT CRC432_NT CRC430_NT CRC425_NT CRC423_NT CRC424_NT CRC426_NT CRC422_NT CRC417_NT CRC419_NT CRC414_NT CRC418_NT CRC411_NT CRC605_NT CRC413_NT CRC408_NT CRC415_NT CRC416_NT CRC402_NT CRC403_NT CRC410_NT CRC409_NT CRC405_NT CRC404_NT CRC407_NT CRC406_NT CRC401_NT CRC398_NT CRC400_NT CRC399_NT CRC349_NT CRC393_NT CRC421_NT CRC396_NT CRC394_NT CRC390_NT CRC397_NT CRC391_NT CRC395_NT CRC420_NT CRC389_NT CRC392_NT CRC387_NT CRC383_NT CRC388_NT CRC385_NT CRC386_NT CRC339_NT CRC384_NT CRC379_NT CRC338_NT CRC380_NT CRC337_NT CRC336_NT CRC334_NT CRC332_NT CRC333_NT CRC331_NT CRC335_NT CRC324_NT CRC327_NT CRC329_NT CRC325_NT CRC330_NT CRC328_NT CRC326_NT CRC323_NT CRC321_NT CRC378_NT CRC322_NT CRC318_NT CRC822_NT CRC314_NT CRC320_NT CRC317_NT CRC316_NT CRC376_NT CRC371_NT CRC373_NT CRC749_NT CRC365_NT CRC370_NT CRC367_NT CRC360_NT CRC358_NT CRC361_NT CRC350_NT CRC357_NT CRC363_NT CRC354_NT CRC343_NT CRC346_NT CRC348_NT CRC341_NT CRC340_NT CRC356_NT CRC342_NT CRC359_NT CRC6_NT CRC351_NT CRC362_NT CRC345_NT CRC347_NT CRC368_NT CRC344_NT CRC375_NT CRC369_NT CRC364_NT CRC374_NT CRC366_NT CRC310_NT CRC313_NT CRC312_NT CRC307_NT CRC305_NT CRC311_NT CRC308_NT CRC306_NT CRC309_NT CRC304_NT CRC300_NT CRC299_NT CRC302_NT CRC297_NT CRC301_NT CRC295_NT CRC293_NT CRC294_NT CRC292_NT CRC298_NT CRC282_NT CRC291_NT CRC290_NT CRC279_NT CRC286_NT CRC276_NT CRC273_NT CRC275_NT CRC272_NT CRC271_NT CRC274_NT CRC269_NT CRC288_NT CRC270_NT CRC267_NT CRC268_NT CRC266_NT CRC287_NT CRC263_NT CRC262_NT CRC264_NT CRC265_NT CRC260_NT CRC258_NT CRC261_NT CRC259_NT CRC278_NT CRC285_NT CRC283_NT CRC281_NT CRC244_NT CRC255_NT CRC256_NT CRC257_NT CRC254_NT CRC250_NT CRC252_NT CRC253_NT CRC251_NT CRC249_NT CRC247_NT CRC200_NT CRC241_NT CRC246_NT CRC248_NT CRC245_NT CRC243_NT CRC242_NT CRC235_NT CRC240_NT CRC237_NT CRC239_NT CRC238_NT CRC236_NT CRC234_NT CRC232_NT CRC230_NT CRC227_NT CRC229_NT CRC233_NT CRC231_NT CRC226_NT CRC222_NT CRC223_NT CRC224_NT CRC218_NT CRC217_NT CRC220_NT CRC221_NT CRC219_NT CRC214_NT CRC108_NT CRC212_NT CRC215_NT CRC216_NT CRC211_NT CRC210_NT CRC209_NT CRC206_NT CRC208_NT CRC205_NT CRC198_NT CRC201_NT CRC203_NT CRC202_NT CRC197_NT CRC199_NT CRC768_NT CRC190_NT CRC193_NT CRC194_NT CRC196_NT CRC185_NT CRC195_NT CRC192_NT CRC191_NT CRC187_NT CRC188_NT CRC182_NT CRC180_NT CRC179_NT CRC184_NT CRC183_NT CRC181_NT CRC177_NT CRC172_NT CRC175_NT CRC173_NT CRC174_NT CRC171_NT CRC170_NT CRC169_NT CRC167_NT CRC168_NT CRC164_NT CRC162_NT CRC163_NT CRC160_NT CRC159_NT CRC161_NT CRC157_NT CRC158_NT CRC156_NT CRC787_NT CRC825_NT CRC798_NT CRC757_NT CRC779_NT CRC817_NT CRC809_NT CRC796_NT CRC801_NT CRC794_NT CRC820_NT CRC760_NT CRC784_NT CRC765_NT CRC815_NT CRC764_NT CRC776_NT CRC781_NT CRC813_NT CRC783_NT CRC821_NT CRC790_NT CRC759_NT CRC789_NT CRC747_NT CRC769_NT CRC754_NT CRC751_NT CRC712_NT CRC766_NT CRC762_NT CRC810_NT CRC777_NT CRC799_NT CRC753_NT CRC819_NT CRC808_NT CRC812_NT CRC797_NT CRC778_NT CRC823_NT CRC772_NT CRC814_NT CRC807_NT CRC788_NT CRC786_NT CRC767_NT CRC802_NT CRC805_NT CRC806_NT CRC69_NT CRC746_NT CRC811_NT CRC804_NT CRC785_NT CRC770_NT CRC756_NT CRC761_NT CRC763_NT CRC818_NT CRC775_NT CRC145_NT CRC151_NT CRC791_NT CRC773_NT CRC774_NT CRC793_NT CRC153_NT CRC824_NT CRC795_NT CRC155_NT CRC800_NT CRC154_NT CRC146_NT CRC152_NT CRC148_NT CRC150_NT CRC143_NT CRC141_NT CRC147_NT CRC139_NT CRC142_NT CRC138_NT CRC137_NT CRC140_NT CRC136_NT CRC133_NT CRC135_NT CRC130_NT CRC129_NT CRC131_NT CRC121_NT CRC128_NT CRC126_NT CRC125_NT CRC118_NT CRC127_NT CRC120_NT CRC123_NT CRC106_NT CRC122_NT CRC111_NT CRC115_NT CRC116_NT CRC119_NT CRC117_NT CRC107_NT CRC113_NT CRC114_NT CRC109_NT CRC97_NT CRC110_NT CRC104_NT CRC105_NT CRC98_NT CRC99_NT CRC100_NT CRC96_NT CRC103_NT CRC95_NT CRC101_NT CRC93_NT CRC94_NT CRC79_NT CRC89_NT CRC87_NT CRC90_NT CRC91_NT CRC862_NT CRC88_NT CRC83_NT CRC85_NT CRC84_NT CRC86_NT CRC76_NT CRC62_NT CRC81_NT CRC80_NT CRC82_NT CRC78_NT CRC75_NT CRC77_NT CRC74_NT CRC72_NT CRC73_NT CRC562_NT CRC71_NT CRC70_NT CRC68_NT CRC855_NT CRC65_NT CRC64_NT CRC67_NT CRC66_NT CRC61_NT CRC63_NT CRC54_NT CRC55_NT CRC58_NT CRC56_NT CRC60_NT CRC57_NT CRC46_NT CRC52_NT CRC59_NT CRC49_NT CRC48_NT CRC51_NT CRC47_NT CRC40_NT CRC42_NT CRC45_NT CRC39_NT CRC37_NT CRC33_NT CRC36_NT CRC35_NT CRC31_NT CRC34_NT CRC30_NT CRC27_NT CRC24_NT CRC19_NT CRC28_NT CRC22_NT CRC12_NT CRC20_NT CRC23_NT CRC21_NT CRC18_NT CRC13_NT CRC15_NT CRC14_NT CRC11_NT CRC8_NT CRC16_NT CRC10_NT CRC588_NT CRC5_NT CRC9_NT CRC4_NT CRC1_NT CRC7_NT CRC606_NT CRC2_NT CRC3_NT CRC607_NT CRC601_NT CRC600_NT CRC599_NT CRC603_NT CRC598_NT CRC602_NT CRC594_NT CRC597_NT CRC604_NT CRC596_NT CRC590_NT CRC591_NT CRC595_NT CRC592_NT CRC593_NT CRC589_NT CRC585_NT CRC586_NT CRC587_NT CRC582_NT CRC583_NT CRC581_NT CRC584_NT CRC576_NT CRC578_NT CRC580_NT CRC577_NT CRC575_NT CRC574_NT CRC579_NT CRC719_NT CRC573_NT CRC571_NT CRC568_NT CRC569_NT CRC567_NT CRC566_NT CRC564_NT CRC558_NT CRC559_NT CRC673_NT CRC556_NT CRC563_NT CRC560_NT CRC561_NT CRC555_NT CRC557_NT CRC554_NT CRC671_NT CRC553_NT CRC693_NT CRC675_NT CRC690_NT CRC678_NT CRC683_NT CRC686_NT CRC685_NT CRC682_NT CRC677_NT CRC680_NT CRC674_NT CRC694_NT CRC679_NT CRC676_NT CRC681_NT CRC684_NT CRC672_NT CRC717_NT CRC691_NT CRC716_NT CRC670_NT CRC864_NT CRC669_NT CRC870_NT CRC634_NT CRC647_NT CRC638_NT CRC654_NT CRC861_NT CRC651_NT CRC646_NT CRC860_NT CRC867_NT CRC873_NT CRC872_NT CRC623_NT CRC866_NT CRC865_NT CRC667_NT CRC871_NT CRC863_NT CRC868_NT CRC618_NT CRC616_NT CRC620_NT CRC706_NT CRC708_NT CRC710_NT CRC641_NT CRC707_NT CRC709_NT CRC657_NT CRC714_NT CRC711_NT CRC666_NT CRC639_NT CRC715_NT CRC661_NT CRC642_NT CRC617_NT CRC625_NT CRC619_NT CRC640_NT CRC648_NT CRC649_NT CRC664_NT CRC663_NT CRC660_NT CRC629_NT CRC650_NT CRC632_NT CRC659_NT CRC628_NT CRC622_NT CRC668_NT CRC631_NT CRC615_NT CRC665_NT CRC614_NT CRC658_NT CRC662_NT CRC723_NT CRC636_NT CRC633_NT CRC635_NT CRC627_NT CRC644_NT CRC643_NT CRC656_NT CRC645_NT CRC726_NT CRC704_NT CRC697_NT CRC655_NT CRC740_NT CRC702_NT CRC703_NT CRC724_NT CRC696_NT CRC869_NT CRC743_NT CRC698_NT CRC727_NT CRC699_NT CRC734_NT CRC744_NT CRC721_NT CRC745_NT CRC700_NT CRC859_NT CRC722_NT CRC705_NT CRC701_NT CRC856_NT CRC725_NT CRC857_NT CRC832_NT CRC732_NT CRC848_NT CRC739_NT CRC846_NT CRC608_NT CRC838_NT CRC850_NT CRC840_NT CRC733_NT CRC829_NT CRC852_NT CRC834_NT CRC826_NT CRC613_NT CRC612_NT CRC720_NT CRC736_NT CRC609_NT CRC611_NT CRC742_NT CRC828_NT CRC849_NT CRC827_NT CRC844_NT CRC843_NT CRC830_NT CRC853_NT CRC847_NT CRC833_NT CRC854_NT CRC837_NT CRC999_NT CRC842_NT CRC835_NT CRC997_NT CRC831_NT CRC998_NT CRC996_NT CRC927_NT CRC943_NT CRC928_NT CRC971_NT CRC945_NT CRC922_NT CRC924_NT CRC916_NT CRC980_NT CRC939_NT CRC920_NT CRC973_NT CRC947_NT CRC990_NT CRC930_NT CRC929_NT CRC969_NT CRC949_NT CRC923_NT CRC993_NT CRC935_NT CRC970_NT CRC959_NT CRC931_NT CRC942_NT CRC984_NT CRC963_NT CRC994_NT CRC948_NT CRC991_NT CRC966_NT CRC944_NT CRC988_NT CRC977_NT CRC968_NT CRC981_NT CRC964_NT CRC992_NT CRC954_NT CRC978_NT CRC950_NT CRC955_NT CRC979_NT CRC932_NT CRC956_NT CRC938_NT CRC983_NT CRC985_NT CRC961_NT CRC982_NT CRC925_NT CRC940_NT CRC919_NT CRC975_NT CRC957_NT CRC962_NT CRC995_NT CRC946_NT CRC934_NT CRC989_NT CRC941_NT CRC888_NT CRC972_NT CRC891_NT CRC965_NT CRC910_NT CRC880_NT CRC889_NT CRC885_NT CRC894_NT CRC904_NT CRC914_NT CRC875_NT CRC878_NT CRC893_NT CRC882_NT CRC906_NT CRC886_NT CRC901_NT CRC915_NT CRC879_NT CRC874_NT CRC895_NT CRC877_NT CRC884_NT CRC887_NT CRC899_NT CRC898_NT CRC911_NT CRC890_NT CRC912_NT CRC897_NT CRC903_NT CRC1007_NT CRC1182_NT CRC1114_NT CRC1191_NT CRC1077_NT CRC1004_NT CRC1046_NT CRC1095_NT CRC1120_NT CRC1055_NT CRC1017_NT CRC1147_NT CRC1041_NT CRC1039_NT CRC1086_NT CRC1238_NT CRC1213_NT CRC1185_NT CRC1157_NT CRC1140_NT CRC1211_NT CRC1102_NT CRC1083_NT CRC1030_NT CRC1139_NT CRC1258_NT CRC1146_NT CRC1093_NT CRC1080_NT CRC1037_NT CRC1079_NT CRC1036_NT CRC1142_NT CRC1042_NT CRC1023_NT CRC1005_NT CRC1058_NT CRC1022_NT CRC1183_NT CRC1118_NT CRC1081_NT CRC1119_NT CRC1020_NT CRC1160_NT CRC1001_NT CRC1220_NT CRC1078_NT CRC1201_NT CRC1052_NT CRC1230_NT CRC1214_NT CRC1169_NT CRC1026_NT CRC1176_NT CRC1221_NT CRC1158_NT CRC1082_NT CRC1018_NT CRC1127_NT CRC1163_NT CRC1148_NT CRC1025_NT CRC1129_NT CRC1125_NT CRC1031_NT CRC1224_NT CRC1141_NT CRC1227_NT CRC1024_NT CRC1204_NT CRC1225_NT CRC1155_NT CRC1053_NT CRC1153_NT CRC1099_NT CRC1319_NT CRC1075_NT CRC1106_NT CRC1100_NT CRC1115_NT CRC1156_NT CRC1101_NT CRC1003_NT CRC1074_NT CRC1057_NT CRC1096_NT CRC1048_NT CRC1012_NT CRC1068_NT CRC1071_NT CRC1067_NT CRC1283_NT CRC1002_NT CRC1034_NT CRC1070_NT CRC1033_NT CRC1063_NT CRC1066_NT CRC1059_NT CRC1047_NT CRC1045_NT CRC1134_NT CRC1065_NT CRC1123_NT CRC1073_NT CRC1061_NT CRC1016_NT CRC1072_NT CRC1097_NT CRC1177_NT CRC1137_NT CRC1122_NT CRC1060_NT CRC1089_NT CRC1006_NT CRC1032_NT CRC1237_NT CRC1028_NT CRC1296_NT CRC1234_NT CRC1044_NT CRC1021_NT CRC1109_NT CRC1107_NT CRC1135_NT CRC1029_NT CRC1013_NT diff --git a/public/crc_sysucc_2022/case_lists/cases_cnaseq.txt b/public/crc_sysucc_2022/case_lists/cases_cnaseq.txt new file mode 100755 index 000000000..d8266c06e --- /dev/null +++ b/public/crc_sysucc_2022/case_lists/cases_cnaseq.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: crc_sysucc_2022 +stable_id: crc_sysucc_2022_cnaseq +case_list_name: Samples with mutation and CNA data +case_list_description: Samples with mutation and CNA data (1015 samples) +case_list_category: all_cases_with_mutation_and_cna_data +case_list_ids: CRC652_NT CRC476_NT CRC730_NT CRC165_NT CRC176_NT CRC967_NT CRC451_NT CRC858_NT CRC277_NT CRC881_NT CRC958_NT CRC112_NT CRC937_NT CRC289_NT CRC132_NT CRC951_NT CRC284_NT CRC692_NT CRC511_NT CRC479_NT CRC38_NT CRC533_NT CRC296_NT CRC501_NT CRC1196_NT CRC515_NT CRC695_NT CRC513_NT CRC516_NT CRC514_NT CRC517_NT CRC519_NT CRC518_NT CRC520_NT CRC521_NT CRC524_NT CRC523_NT CRC525_NT CRC522_NT CRC526_NT CRC528_NT CRC529_NT CRC530_NT CRC532_NT CRC534_NT CRC535_NT CRC549_NT CRC536_NT CRC537_NT CRC538_NT CRC541_NT CRC539_NT CRC543_NT CRC540_NT CRC542_NT CRC545_NT CRC544_NT CRC546_NT CRC548_NT CRC551_NT CRC550_NT CRC552_NT CRC488_NT CRC512_NT CRC547_NT CRC510_NT CRC508_NT CRC509_NT CRC507_NT CRC500_NT CRC499_NT CRC503_NT CRC496_NT CRC504_NT CRC505_NT CRC493_NT CRC502_NT CRC498_NT CRC495_NT CRC494_NT CRC491_NT CRC492_NT CRC490_NT CRC489_NT CRC487_NT CRC484_NT CRC485_NT CRC483_NT CRC486_NT CRC480_NT CRC482_NT CRC481_NT CRC478_NT CRC470_NT CRC473_NT CRC471_NT CRC474_NT CRC475_NT CRC472_NT CRC467_NT CRC468_NT CRC462_NT CRC461_NT CRC459_NT CRC452_NT CRC456_NT CRC458_NT CRC453_NT CRC448_NT CRC457_NT CRC455_NT CRC450_NT CRC449_NT CRC447_NT CRC446_NT CRC444_NT CRC442_NT CRC443_NT CRC441_NT CRC439_NT CRC428_NT CRC434_NT CRC438_NT CRC437_NT CRC429_NT CRC412_NT CRC435_NT CRC436_NT CRC431_NT CRC433_NT CRC427_NT CRC432_NT CRC430_NT CRC425_NT CRC423_NT CRC424_NT CRC426_NT CRC422_NT CRC417_NT CRC419_NT CRC414_NT CRC418_NT CRC411_NT CRC605_NT CRC413_NT CRC408_NT CRC415_NT CRC416_NT CRC402_NT CRC403_NT CRC410_NT CRC409_NT CRC405_NT CRC404_NT CRC407_NT CRC406_NT CRC401_NT CRC398_NT CRC400_NT CRC399_NT CRC349_NT CRC393_NT CRC421_NT CRC396_NT CRC394_NT CRC390_NT CRC397_NT CRC391_NT CRC395_NT CRC420_NT CRC389_NT CRC392_NT CRC387_NT CRC383_NT CRC388_NT CRC385_NT CRC386_NT CRC339_NT CRC384_NT CRC379_NT CRC338_NT CRC380_NT CRC337_NT CRC336_NT CRC334_NT CRC332_NT CRC333_NT CRC331_NT CRC335_NT CRC324_NT CRC327_NT CRC329_NT CRC325_NT CRC330_NT CRC328_NT CRC326_NT CRC323_NT CRC321_NT CRC378_NT CRC322_NT CRC318_NT CRC822_NT CRC314_NT CRC320_NT CRC317_NT CRC316_NT CRC376_NT CRC371_NT CRC373_NT CRC749_NT CRC365_NT CRC370_NT CRC367_NT CRC360_NT CRC358_NT CRC361_NT CRC350_NT CRC357_NT CRC363_NT CRC354_NT CRC343_NT CRC346_NT CRC348_NT CRC341_NT CRC340_NT CRC356_NT CRC342_NT CRC359_NT CRC6_NT CRC351_NT CRC362_NT CRC345_NT CRC347_NT CRC368_NT CRC344_NT CRC375_NT CRC369_NT CRC364_NT CRC374_NT CRC366_NT CRC310_NT CRC313_NT CRC312_NT CRC307_NT CRC305_NT CRC311_NT CRC308_NT CRC306_NT CRC309_NT CRC304_NT CRC300_NT CRC299_NT CRC302_NT CRC297_NT CRC301_NT CRC295_NT CRC293_NT CRC294_NT CRC292_NT CRC298_NT CRC282_NT CRC291_NT CRC290_NT CRC279_NT CRC286_NT CRC276_NT CRC273_NT CRC275_NT CRC272_NT CRC271_NT CRC274_NT CRC269_NT CRC288_NT CRC270_NT CRC267_NT CRC268_NT CRC266_NT CRC287_NT CRC263_NT CRC262_NT CRC264_NT CRC265_NT CRC260_NT CRC258_NT CRC261_NT CRC259_NT CRC278_NT CRC285_NT CRC283_NT CRC281_NT CRC244_NT CRC255_NT CRC256_NT CRC257_NT CRC254_NT CRC250_NT CRC252_NT CRC253_NT CRC251_NT CRC249_NT CRC247_NT CRC200_NT CRC241_NT CRC246_NT CRC248_NT CRC245_NT CRC243_NT CRC242_NT CRC235_NT CRC240_NT CRC237_NT CRC239_NT CRC238_NT CRC236_NT CRC234_NT CRC232_NT CRC230_NT CRC227_NT CRC229_NT CRC233_NT CRC231_NT CRC226_NT CRC222_NT CRC223_NT CRC224_NT CRC218_NT CRC217_NT CRC220_NT CRC221_NT CRC219_NT CRC214_NT CRC108_NT CRC212_NT CRC215_NT CRC216_NT CRC211_NT CRC210_NT CRC209_NT CRC206_NT CRC208_NT CRC205_NT CRC198_NT CRC201_NT CRC203_NT CRC202_NT CRC197_NT CRC199_NT CRC768_NT CRC190_NT CRC193_NT CRC194_NT CRC196_NT CRC185_NT CRC195_NT CRC192_NT CRC191_NT CRC187_NT CRC188_NT CRC182_NT CRC180_NT CRC179_NT CRC184_NT CRC183_NT CRC181_NT CRC177_NT CRC172_NT CRC175_NT CRC173_NT CRC174_NT CRC171_NT CRC170_NT CRC169_NT CRC167_NT CRC168_NT CRC164_NT CRC162_NT CRC163_NT CRC160_NT CRC159_NT CRC161_NT CRC157_NT CRC158_NT CRC156_NT CRC787_NT CRC825_NT CRC798_NT CRC757_NT CRC779_NT CRC817_NT CRC809_NT CRC796_NT CRC801_NT CRC794_NT CRC820_NT CRC760_NT CRC784_NT CRC765_NT CRC815_NT CRC764_NT CRC776_NT CRC781_NT CRC813_NT CRC783_NT CRC821_NT CRC790_NT CRC759_NT CRC789_NT CRC747_NT CRC769_NT CRC754_NT CRC751_NT CRC712_NT CRC766_NT CRC762_NT CRC810_NT CRC777_NT CRC799_NT CRC753_NT CRC819_NT CRC808_NT CRC812_NT CRC797_NT CRC778_NT CRC823_NT CRC772_NT CRC814_NT CRC807_NT CRC788_NT CRC786_NT CRC767_NT CRC802_NT CRC805_NT CRC806_NT CRC69_NT CRC746_NT CRC811_NT CRC804_NT CRC785_NT CRC770_NT CRC756_NT CRC761_NT CRC763_NT CRC818_NT CRC775_NT CRC145_NT CRC151_NT CRC791_NT CRC773_NT CRC774_NT CRC793_NT CRC153_NT CRC824_NT CRC795_NT CRC155_NT CRC800_NT CRC154_NT CRC146_NT CRC152_NT CRC148_NT CRC150_NT CRC143_NT CRC141_NT CRC147_NT CRC139_NT CRC142_NT CRC138_NT CRC137_NT CRC140_NT CRC136_NT CRC133_NT CRC135_NT CRC130_NT CRC129_NT CRC131_NT CRC121_NT CRC128_NT CRC126_NT CRC125_NT CRC118_NT CRC127_NT CRC120_NT CRC123_NT CRC106_NT CRC122_NT CRC111_NT CRC115_NT CRC116_NT CRC119_NT CRC117_NT CRC107_NT CRC113_NT CRC114_NT CRC109_NT CRC97_NT CRC110_NT CRC104_NT CRC105_NT CRC98_NT CRC99_NT CRC100_NT CRC96_NT CRC103_NT CRC95_NT CRC101_NT CRC93_NT CRC94_NT CRC79_NT CRC89_NT CRC87_NT CRC90_NT CRC91_NT CRC862_NT CRC88_NT CRC83_NT CRC85_NT CRC84_NT CRC86_NT CRC76_NT CRC62_NT CRC81_NT CRC80_NT CRC82_NT CRC78_NT CRC75_NT CRC77_NT CRC74_NT CRC72_NT CRC73_NT CRC562_NT CRC71_NT CRC70_NT CRC68_NT CRC855_NT CRC65_NT CRC64_NT CRC67_NT CRC66_NT CRC61_NT CRC63_NT CRC54_NT CRC55_NT CRC58_NT CRC56_NT CRC60_NT CRC57_NT CRC46_NT CRC52_NT CRC59_NT CRC49_NT CRC48_NT CRC51_NT CRC47_NT CRC40_NT CRC42_NT CRC45_NT CRC39_NT CRC37_NT CRC33_NT CRC36_NT CRC35_NT CRC31_NT CRC34_NT CRC30_NT CRC27_NT CRC24_NT CRC19_NT CRC28_NT CRC22_NT CRC12_NT CRC20_NT CRC23_NT CRC21_NT CRC18_NT CRC13_NT CRC15_NT CRC14_NT CRC11_NT CRC8_NT CRC16_NT CRC10_NT CRC588_NT CRC5_NT CRC9_NT CRC4_NT CRC1_NT CRC7_NT CRC606_NT CRC2_NT CRC3_NT CRC607_NT CRC601_NT CRC600_NT CRC599_NT CRC603_NT CRC598_NT CRC602_NT CRC594_NT CRC597_NT CRC604_NT CRC596_NT CRC590_NT CRC591_NT CRC595_NT CRC592_NT CRC593_NT CRC589_NT CRC585_NT CRC586_NT CRC587_NT CRC582_NT CRC583_NT CRC581_NT CRC584_NT CRC576_NT CRC578_NT CRC580_NT CRC577_NT CRC575_NT CRC574_NT CRC579_NT CRC719_NT CRC573_NT CRC571_NT CRC568_NT CRC569_NT CRC567_NT CRC566_NT CRC564_NT CRC558_NT CRC559_NT CRC673_NT CRC556_NT CRC563_NT CRC560_NT CRC561_NT CRC555_NT CRC557_NT CRC554_NT CRC671_NT CRC553_NT CRC693_NT CRC675_NT CRC690_NT CRC678_NT CRC683_NT CRC686_NT CRC685_NT CRC682_NT CRC677_NT CRC680_NT CRC674_NT CRC694_NT CRC679_NT CRC676_NT CRC681_NT CRC684_NT CRC672_NT CRC717_NT CRC691_NT CRC716_NT CRC670_NT CRC864_NT CRC669_NT CRC870_NT CRC634_NT CRC647_NT CRC638_NT CRC654_NT CRC861_NT CRC651_NT CRC646_NT CRC860_NT CRC867_NT CRC873_NT CRC872_NT CRC623_NT CRC866_NT CRC865_NT CRC667_NT CRC871_NT CRC863_NT CRC868_NT CRC618_NT CRC616_NT CRC620_NT CRC706_NT CRC708_NT CRC710_NT CRC641_NT CRC707_NT CRC709_NT CRC657_NT CRC714_NT CRC711_NT CRC666_NT CRC639_NT CRC715_NT CRC661_NT CRC642_NT CRC617_NT CRC625_NT CRC619_NT CRC640_NT CRC648_NT CRC649_NT CRC664_NT CRC663_NT CRC660_NT CRC629_NT CRC650_NT CRC632_NT CRC659_NT CRC628_NT CRC622_NT CRC668_NT CRC631_NT CRC615_NT CRC665_NT CRC614_NT CRC658_NT CRC662_NT CRC723_NT CRC636_NT CRC633_NT CRC635_NT CRC627_NT CRC644_NT CRC643_NT CRC656_NT CRC645_NT CRC726_NT CRC704_NT CRC697_NT CRC655_NT CRC740_NT CRC702_NT CRC703_NT CRC724_NT CRC696_NT CRC869_NT CRC743_NT CRC698_NT CRC727_NT CRC699_NT CRC734_NT CRC744_NT CRC721_NT CRC745_NT CRC700_NT CRC859_NT CRC722_NT CRC705_NT CRC701_NT CRC856_NT CRC725_NT CRC857_NT CRC832_NT CRC732_NT CRC848_NT CRC739_NT CRC846_NT CRC608_NT CRC838_NT CRC850_NT CRC840_NT CRC733_NT CRC829_NT CRC852_NT CRC834_NT CRC826_NT CRC613_NT CRC612_NT CRC720_NT CRC736_NT CRC609_NT CRC611_NT CRC742_NT CRC828_NT CRC849_NT CRC827_NT CRC844_NT CRC843_NT CRC830_NT CRC853_NT CRC847_NT CRC833_NT CRC854_NT CRC837_NT CRC999_NT CRC842_NT CRC835_NT CRC997_NT CRC831_NT CRC998_NT CRC996_NT CRC927_NT CRC943_NT CRC928_NT CRC971_NT CRC945_NT CRC922_NT CRC924_NT CRC916_NT CRC980_NT CRC939_NT CRC920_NT CRC973_NT CRC947_NT CRC990_NT CRC930_NT CRC929_NT CRC969_NT CRC949_NT CRC923_NT CRC993_NT CRC935_NT CRC970_NT CRC959_NT CRC931_NT CRC942_NT CRC984_NT CRC963_NT CRC994_NT CRC948_NT CRC991_NT CRC966_NT CRC944_NT CRC988_NT CRC977_NT CRC968_NT CRC981_NT CRC964_NT CRC992_NT CRC954_NT CRC978_NT CRC950_NT CRC955_NT CRC979_NT CRC932_NT CRC956_NT CRC938_NT CRC983_NT CRC985_NT CRC961_NT CRC982_NT CRC925_NT CRC940_NT CRC919_NT CRC975_NT CRC957_NT CRC962_NT CRC995_NT CRC946_NT CRC934_NT CRC989_NT CRC941_NT CRC888_NT CRC972_NT CRC891_NT CRC965_NT CRC910_NT CRC880_NT CRC889_NT CRC885_NT CRC894_NT CRC904_NT CRC914_NT CRC875_NT CRC878_NT CRC893_NT CRC882_NT CRC906_NT CRC886_NT CRC901_NT CRC915_NT CRC879_NT CRC874_NT CRC895_NT CRC877_NT CRC884_NT CRC887_NT CRC899_NT CRC898_NT CRC911_NT CRC890_NT CRC912_NT CRC897_NT CRC903_NT CRC1007_NT CRC1182_NT CRC1114_NT CRC1191_NT CRC1077_NT CRC1004_NT CRC1046_NT CRC1095_NT CRC1120_NT CRC1055_NT CRC1017_NT CRC1147_NT CRC1041_NT CRC1039_NT CRC1086_NT CRC1238_NT CRC1213_NT CRC1185_NT CRC1157_NT CRC1140_NT CRC1211_NT CRC1102_NT CRC1083_NT CRC1030_NT CRC1139_NT CRC1258_NT CRC1146_NT CRC1093_NT CRC1080_NT CRC1037_NT CRC1079_NT CRC1036_NT CRC1142_NT CRC1042_NT CRC1023_NT CRC1005_NT CRC1058_NT CRC1022_NT CRC1183_NT CRC1118_NT CRC1081_NT CRC1119_NT CRC1020_NT CRC1160_NT CRC1001_NT CRC1220_NT CRC1078_NT CRC1201_NT CRC1052_NT CRC1230_NT CRC1214_NT CRC1169_NT CRC1026_NT CRC1176_NT CRC1221_NT CRC1158_NT CRC1082_NT CRC1018_NT CRC1127_NT CRC1163_NT CRC1148_NT CRC1025_NT CRC1129_NT CRC1125_NT CRC1031_NT CRC1224_NT CRC1141_NT CRC1227_NT CRC1024_NT CRC1204_NT CRC1225_NT CRC1155_NT CRC1053_NT CRC1153_NT CRC1099_NT CRC1319_NT CRC1075_NT CRC1106_NT CRC1100_NT CRC1115_NT CRC1156_NT CRC1101_NT CRC1003_NT CRC1074_NT CRC1057_NT CRC1096_NT CRC1048_NT CRC1012_NT CRC1068_NT CRC1071_NT CRC1067_NT CRC1283_NT CRC1002_NT CRC1034_NT CRC1070_NT CRC1033_NT CRC1063_NT CRC1066_NT CRC1059_NT CRC1047_NT CRC1045_NT CRC1134_NT CRC1065_NT CRC1123_NT CRC1073_NT CRC1061_NT CRC1016_NT CRC1072_NT CRC1097_NT CRC1177_NT CRC1137_NT CRC1122_NT CRC1060_NT CRC1089_NT CRC1006_NT CRC1032_NT CRC1237_NT CRC1028_NT CRC1296_NT CRC1234_NT CRC1044_NT CRC1021_NT CRC1109_NT CRC1107_NT CRC1135_NT CRC1029_NT CRC1013_NT diff --git a/public/crc_sysucc_2022/case_lists/cases_sequenced.txt b/public/crc_sysucc_2022/case_lists/cases_sequenced.txt new file mode 100644 index 000000000..bf73ad71e --- /dev/null +++ b/public/crc_sysucc_2022/case_lists/cases_sequenced.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: crc_sysucc_2022 +stable_id: crc_sysucc_2022_sequenced +case_list_name: Samples with mutation data +case_list_description: Samples with mutation data (1015 samples) +case_list_category: all_cases_with_mutation_data +case_list_ids: CRC652_NT CRC476_NT CRC730_NT CRC165_NT CRC176_NT CRC967_NT CRC451_NT CRC858_NT CRC277_NT CRC881_NT CRC958_NT CRC112_NT CRC937_NT CRC289_NT CRC132_NT CRC951_NT CRC284_NT CRC692_NT CRC511_NT CRC479_NT CRC38_NT CRC533_NT CRC296_NT CRC501_NT CRC1196_NT CRC515_NT CRC695_NT CRC513_NT CRC516_NT CRC514_NT CRC517_NT CRC519_NT CRC518_NT CRC520_NT CRC521_NT CRC524_NT CRC523_NT CRC525_NT CRC522_NT CRC526_NT CRC528_NT CRC529_NT CRC530_NT CRC532_NT CRC534_NT CRC535_NT CRC549_NT CRC536_NT CRC537_NT CRC538_NT CRC541_NT CRC539_NT CRC543_NT CRC540_NT CRC542_NT CRC545_NT CRC544_NT CRC546_NT CRC548_NT CRC551_NT CRC550_NT CRC552_NT CRC488_NT CRC512_NT CRC547_NT CRC510_NT CRC508_NT CRC509_NT CRC507_NT CRC500_NT CRC499_NT CRC503_NT CRC496_NT CRC504_NT CRC505_NT CRC493_NT CRC502_NT CRC498_NT CRC495_NT CRC494_NT CRC491_NT CRC492_NT CRC490_NT CRC489_NT CRC487_NT CRC484_NT CRC485_NT CRC483_NT CRC486_NT CRC480_NT CRC482_NT CRC481_NT CRC478_NT CRC470_NT CRC473_NT CRC471_NT CRC474_NT CRC475_NT CRC472_NT CRC467_NT CRC468_NT CRC462_NT CRC461_NT CRC459_NT CRC452_NT CRC456_NT CRC458_NT CRC453_NT CRC448_NT CRC457_NT CRC455_NT CRC450_NT CRC449_NT CRC447_NT CRC446_NT CRC444_NT CRC442_NT CRC443_NT CRC441_NT CRC439_NT CRC428_NT CRC434_NT CRC438_NT CRC437_NT CRC429_NT CRC412_NT CRC435_NT CRC436_NT CRC431_NT CRC433_NT CRC427_NT CRC432_NT CRC430_NT CRC425_NT CRC423_NT CRC424_NT CRC426_NT CRC422_NT CRC417_NT CRC419_NT CRC414_NT CRC418_NT CRC411_NT CRC605_NT CRC413_NT CRC408_NT CRC415_NT CRC416_NT CRC402_NT CRC403_NT CRC410_NT CRC409_NT CRC405_NT CRC404_NT CRC407_NT CRC406_NT CRC401_NT CRC398_NT CRC400_NT CRC399_NT CRC349_NT CRC393_NT CRC421_NT CRC396_NT CRC394_NT CRC390_NT CRC397_NT CRC391_NT CRC395_NT CRC420_NT CRC389_NT CRC392_NT CRC387_NT CRC383_NT CRC388_NT CRC385_NT CRC386_NT CRC339_NT CRC384_NT CRC379_NT CRC338_NT CRC380_NT CRC337_NT CRC336_NT CRC334_NT CRC332_NT CRC333_NT CRC331_NT CRC335_NT CRC324_NT CRC327_NT CRC329_NT CRC325_NT CRC330_NT CRC328_NT CRC326_NT CRC323_NT CRC321_NT CRC378_NT CRC322_NT CRC318_NT CRC822_NT CRC314_NT CRC320_NT CRC317_NT CRC316_NT CRC376_NT CRC371_NT CRC373_NT CRC749_NT CRC365_NT CRC370_NT CRC367_NT CRC360_NT CRC358_NT CRC361_NT CRC350_NT CRC357_NT CRC363_NT CRC354_NT CRC343_NT CRC346_NT CRC348_NT CRC341_NT CRC340_NT CRC356_NT CRC342_NT CRC359_NT CRC6_NT CRC351_NT CRC362_NT CRC345_NT CRC347_NT CRC368_NT CRC344_NT CRC375_NT CRC369_NT CRC364_NT CRC374_NT CRC366_NT CRC310_NT CRC313_NT CRC312_NT CRC307_NT CRC305_NT CRC311_NT CRC308_NT CRC306_NT CRC309_NT CRC304_NT CRC300_NT CRC299_NT CRC302_NT CRC297_NT CRC301_NT CRC295_NT CRC293_NT CRC294_NT CRC292_NT CRC298_NT CRC282_NT CRC291_NT CRC290_NT CRC279_NT CRC286_NT CRC276_NT CRC273_NT CRC275_NT CRC272_NT CRC271_NT CRC274_NT CRC269_NT CRC288_NT CRC270_NT CRC267_NT CRC268_NT CRC266_NT CRC287_NT CRC263_NT CRC262_NT CRC264_NT CRC265_NT CRC260_NT CRC258_NT CRC261_NT CRC259_NT CRC278_NT CRC285_NT CRC283_NT CRC281_NT CRC244_NT CRC255_NT CRC256_NT CRC257_NT CRC254_NT CRC250_NT CRC252_NT CRC253_NT CRC251_NT CRC249_NT CRC247_NT CRC200_NT CRC241_NT CRC246_NT CRC248_NT CRC245_NT CRC243_NT CRC242_NT CRC235_NT CRC240_NT CRC237_NT CRC239_NT CRC238_NT CRC236_NT CRC234_NT CRC232_NT CRC230_NT CRC227_NT CRC229_NT CRC233_NT CRC231_NT CRC226_NT CRC222_NT CRC223_NT CRC224_NT CRC218_NT CRC217_NT CRC220_NT CRC221_NT CRC219_NT CRC214_NT CRC108_NT CRC212_NT CRC215_NT CRC216_NT CRC211_NT CRC210_NT CRC209_NT CRC206_NT CRC208_NT CRC205_NT CRC198_NT CRC201_NT CRC203_NT CRC202_NT CRC197_NT CRC199_NT CRC768_NT CRC190_NT CRC193_NT CRC194_NT CRC196_NT CRC185_NT CRC195_NT CRC192_NT CRC191_NT CRC187_NT CRC188_NT CRC182_NT CRC180_NT CRC179_NT CRC184_NT CRC183_NT CRC181_NT CRC177_NT CRC172_NT CRC175_NT CRC173_NT CRC174_NT CRC171_NT CRC170_NT CRC169_NT CRC167_NT CRC168_NT CRC164_NT CRC162_NT CRC163_NT CRC160_NT CRC159_NT CRC161_NT CRC157_NT CRC158_NT CRC156_NT CRC787_NT CRC825_NT CRC798_NT CRC757_NT CRC779_NT CRC817_NT CRC809_NT CRC796_NT CRC801_NT CRC794_NT CRC820_NT CRC760_NT CRC784_NT CRC765_NT CRC815_NT CRC764_NT CRC776_NT CRC781_NT CRC813_NT CRC783_NT CRC821_NT CRC790_NT CRC759_NT CRC789_NT CRC747_NT CRC769_NT CRC754_NT CRC751_NT CRC712_NT CRC766_NT CRC762_NT CRC810_NT CRC777_NT CRC799_NT CRC753_NT CRC819_NT CRC808_NT CRC812_NT CRC797_NT CRC778_NT CRC823_NT CRC772_NT CRC814_NT CRC807_NT CRC788_NT CRC786_NT CRC767_NT CRC802_NT CRC805_NT CRC806_NT CRC69_NT CRC746_NT CRC811_NT CRC804_NT CRC785_NT CRC770_NT CRC756_NT CRC761_NT CRC763_NT CRC818_NT CRC775_NT CRC145_NT CRC151_NT CRC791_NT CRC773_NT CRC774_NT CRC793_NT CRC153_NT CRC824_NT CRC795_NT CRC155_NT CRC800_NT CRC154_NT CRC146_NT CRC152_NT CRC148_NT CRC150_NT CRC143_NT CRC141_NT CRC147_NT CRC139_NT CRC142_NT CRC138_NT CRC137_NT CRC140_NT CRC136_NT CRC133_NT CRC135_NT CRC130_NT CRC129_NT CRC131_NT CRC121_NT CRC128_NT CRC126_NT CRC125_NT CRC118_NT CRC127_NT CRC120_NT CRC123_NT CRC106_NT CRC122_NT CRC111_NT CRC115_NT CRC116_NT CRC119_NT CRC117_NT CRC107_NT CRC113_NT CRC114_NT CRC109_NT CRC97_NT CRC110_NT CRC104_NT CRC105_NT CRC98_NT CRC99_NT CRC100_NT CRC96_NT CRC103_NT CRC95_NT CRC101_NT CRC93_NT CRC94_NT CRC79_NT CRC89_NT CRC87_NT CRC90_NT CRC91_NT CRC862_NT CRC88_NT CRC83_NT CRC85_NT CRC84_NT CRC86_NT CRC76_NT CRC62_NT CRC81_NT CRC80_NT CRC82_NT CRC78_NT CRC75_NT CRC77_NT CRC74_NT CRC72_NT CRC73_NT CRC562_NT CRC71_NT CRC70_NT CRC68_NT CRC855_NT CRC65_NT CRC64_NT CRC67_NT CRC66_NT CRC61_NT CRC63_NT CRC54_NT CRC55_NT CRC58_NT CRC56_NT CRC60_NT CRC57_NT CRC46_NT CRC52_NT CRC59_NT CRC49_NT CRC48_NT CRC51_NT CRC47_NT CRC40_NT CRC42_NT CRC45_NT CRC39_NT CRC37_NT CRC33_NT CRC36_NT CRC35_NT CRC31_NT CRC34_NT CRC30_NT CRC27_NT CRC24_NT CRC19_NT CRC28_NT CRC22_NT CRC12_NT CRC20_NT CRC23_NT CRC21_NT CRC18_NT CRC13_NT CRC15_NT CRC14_NT CRC11_NT CRC8_NT CRC16_NT CRC10_NT CRC588_NT CRC5_NT CRC9_NT CRC4_NT CRC1_NT CRC7_NT CRC606_NT CRC2_NT CRC3_NT CRC607_NT CRC601_NT CRC600_NT CRC599_NT CRC603_NT CRC598_NT CRC602_NT CRC594_NT CRC597_NT CRC604_NT CRC596_NT CRC590_NT CRC591_NT CRC595_NT CRC592_NT CRC593_NT CRC589_NT CRC585_NT CRC586_NT CRC587_NT CRC582_NT CRC583_NT CRC581_NT CRC584_NT CRC576_NT CRC578_NT CRC580_NT CRC577_NT CRC575_NT CRC574_NT CRC579_NT CRC719_NT CRC573_NT CRC571_NT CRC568_NT CRC569_NT CRC567_NT CRC566_NT CRC564_NT CRC558_NT CRC559_NT CRC673_NT CRC556_NT CRC563_NT CRC560_NT CRC561_NT CRC555_NT CRC557_NT CRC554_NT CRC671_NT CRC553_NT CRC693_NT CRC675_NT CRC690_NT CRC678_NT CRC683_NT CRC686_NT CRC685_NT CRC682_NT CRC677_NT CRC680_NT CRC674_NT CRC694_NT CRC679_NT CRC676_NT CRC681_NT CRC684_NT CRC672_NT CRC717_NT CRC691_NT CRC716_NT CRC670_NT CRC864_NT CRC669_NT CRC870_NT CRC634_NT CRC647_NT CRC638_NT CRC654_NT CRC861_NT CRC651_NT CRC646_NT CRC860_NT CRC867_NT CRC873_NT CRC872_NT CRC623_NT CRC866_NT CRC865_NT CRC667_NT CRC871_NT CRC863_NT CRC868_NT CRC618_NT CRC616_NT CRC620_NT CRC706_NT CRC708_NT CRC710_NT CRC641_NT CRC707_NT CRC709_NT CRC657_NT CRC714_NT CRC711_NT CRC666_NT CRC639_NT CRC715_NT CRC661_NT CRC642_NT CRC617_NT CRC625_NT CRC619_NT CRC640_NT CRC648_NT CRC649_NT CRC664_NT CRC663_NT CRC660_NT CRC629_NT CRC650_NT CRC632_NT CRC659_NT CRC628_NT CRC622_NT CRC668_NT CRC631_NT CRC615_NT CRC665_NT CRC614_NT CRC658_NT CRC662_NT CRC723_NT CRC636_NT CRC633_NT CRC635_NT CRC627_NT CRC644_NT CRC643_NT CRC656_NT CRC645_NT CRC726_NT CRC704_NT CRC697_NT CRC655_NT CRC740_NT CRC702_NT CRC703_NT CRC724_NT CRC696_NT CRC869_NT CRC743_NT CRC698_NT CRC727_NT CRC699_NT CRC734_NT CRC744_NT CRC721_NT CRC745_NT CRC700_NT CRC859_NT CRC722_NT CRC705_NT CRC701_NT CRC856_NT CRC725_NT CRC857_NT CRC832_NT CRC732_NT CRC848_NT CRC739_NT CRC846_NT CRC608_NT CRC838_NT CRC850_NT CRC840_NT CRC733_NT CRC829_NT CRC852_NT CRC834_NT CRC826_NT CRC613_NT CRC612_NT CRC720_NT CRC736_NT CRC609_NT CRC611_NT CRC742_NT CRC828_NT CRC849_NT CRC827_NT CRC844_NT CRC843_NT CRC830_NT CRC853_NT CRC847_NT CRC833_NT CRC854_NT CRC837_NT CRC999_NT CRC842_NT CRC835_NT CRC997_NT CRC831_NT CRC998_NT CRC996_NT CRC927_NT CRC943_NT CRC928_NT CRC971_NT CRC945_NT CRC922_NT CRC924_NT CRC916_NT CRC980_NT CRC939_NT CRC920_NT CRC973_NT CRC947_NT CRC990_NT CRC930_NT CRC929_NT CRC969_NT CRC949_NT CRC923_NT CRC993_NT CRC935_NT CRC970_NT CRC959_NT CRC931_NT CRC942_NT CRC984_NT CRC963_NT CRC994_NT CRC948_NT CRC991_NT CRC966_NT CRC944_NT CRC988_NT CRC977_NT CRC968_NT CRC981_NT CRC964_NT CRC992_NT CRC954_NT CRC978_NT CRC950_NT CRC955_NT CRC979_NT CRC932_NT CRC956_NT CRC938_NT CRC983_NT CRC985_NT CRC961_NT CRC982_NT CRC925_NT CRC940_NT CRC919_NT CRC975_NT CRC957_NT CRC962_NT CRC995_NT CRC946_NT CRC934_NT CRC989_NT CRC941_NT CRC888_NT CRC972_NT CRC891_NT CRC965_NT CRC910_NT CRC880_NT CRC889_NT CRC885_NT CRC894_NT CRC904_NT CRC914_NT CRC875_NT CRC878_NT CRC893_NT CRC882_NT CRC906_NT CRC886_NT CRC901_NT CRC915_NT CRC879_NT CRC874_NT CRC895_NT CRC877_NT CRC884_NT CRC887_NT CRC899_NT CRC898_NT CRC911_NT CRC890_NT CRC912_NT CRC897_NT CRC903_NT CRC1007_NT CRC1182_NT CRC1114_NT CRC1191_NT CRC1077_NT CRC1004_NT CRC1046_NT CRC1095_NT CRC1120_NT CRC1055_NT CRC1017_NT CRC1147_NT CRC1041_NT CRC1039_NT CRC1086_NT CRC1238_NT CRC1213_NT CRC1185_NT CRC1157_NT CRC1140_NT CRC1211_NT CRC1102_NT CRC1083_NT CRC1030_NT CRC1139_NT CRC1258_NT CRC1146_NT CRC1093_NT CRC1080_NT CRC1037_NT CRC1079_NT CRC1036_NT CRC1142_NT CRC1042_NT CRC1023_NT CRC1005_NT CRC1058_NT CRC1022_NT CRC1183_NT CRC1118_NT CRC1081_NT CRC1119_NT CRC1020_NT CRC1160_NT CRC1001_NT CRC1220_NT CRC1078_NT CRC1201_NT CRC1052_NT CRC1230_NT CRC1214_NT CRC1169_NT CRC1026_NT CRC1176_NT CRC1221_NT CRC1158_NT CRC1082_NT CRC1018_NT CRC1127_NT CRC1163_NT CRC1148_NT CRC1025_NT CRC1129_NT CRC1125_NT CRC1031_NT CRC1224_NT CRC1141_NT CRC1227_NT CRC1024_NT CRC1204_NT CRC1225_NT CRC1155_NT CRC1053_NT CRC1153_NT CRC1099_NT CRC1319_NT CRC1075_NT CRC1106_NT CRC1100_NT CRC1115_NT CRC1156_NT CRC1101_NT CRC1003_NT CRC1074_NT CRC1057_NT CRC1096_NT CRC1048_NT CRC1012_NT CRC1068_NT CRC1071_NT CRC1067_NT CRC1283_NT CRC1002_NT CRC1034_NT CRC1070_NT CRC1033_NT CRC1063_NT CRC1066_NT CRC1059_NT CRC1047_NT CRC1045_NT CRC1134_NT CRC1065_NT CRC1123_NT CRC1073_NT CRC1061_NT CRC1016_NT CRC1072_NT CRC1097_NT CRC1177_NT CRC1137_NT CRC1122_NT CRC1060_NT CRC1089_NT CRC1006_NT CRC1032_NT CRC1237_NT CRC1028_NT CRC1296_NT CRC1234_NT CRC1044_NT CRC1021_NT CRC1109_NT CRC1107_NT CRC1135_NT CRC1029_NT CRC1013_NT \ No newline at end of file diff --git a/public/crc_sysucc_2022/data_clinical_patient.txt b/public/crc_sysucc_2022/data_clinical_patient.txt new file mode 100644 index 000000000..e9d0b4b01 --- /dev/null +++ b/public/crc_sysucc_2022/data_clinical_patient.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:b73c1de579567488b876ff5b7dd68729f9f2b35c50264741f2cae0d55fa323f0 +size 76824 diff --git a/public/crc_sysucc_2022/data_clinical_sample.txt b/public/crc_sysucc_2022/data_clinical_sample.txt new file mode 100644 index 000000000..fc8d410a2 --- /dev/null +++ b/public/crc_sysucc_2022/data_clinical_sample.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:771ccd361748fa33eb70b0c55350898d6bf66824b3f93d4669d61388c1f1cd4a +size 150622 diff --git a/public/crc_sysucc_2022/data_cna.txt b/public/crc_sysucc_2022/data_cna.txt new file mode 100644 index 000000000..18537480f --- /dev/null +++ b/public/crc_sysucc_2022/data_cna.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:8609d81d6b50ecbb2a87c76078f2a787ac6ec2dda85fc67d9e8e672105000791 +size 47408226 diff --git a/public/crc_sysucc_2022/data_gene_panel_matrix.txt b/public/crc_sysucc_2022/data_gene_panel_matrix.txt new file mode 100644 index 000000000..d9ee95b79 --- /dev/null +++ b/public/crc_sysucc_2022/data_gene_panel_matrix.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:9e397b639b38bee6f5e2a6f03513036c0cf66413cfd8e14c6e90179a90e20de3 +size 18324 diff --git a/public/crc_sysucc_2022/data_mutations.txt b/public/crc_sysucc_2022/data_mutations.txt new file mode 100644 index 000000000..51a04e2a3 --- /dev/null +++ b/public/crc_sysucc_2022/data_mutations.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:326c7efc576655781e2cb3b6e7fdee685b48f0cdc304834636646db1e0b2e27d +size 411650476 diff --git a/public/crc_sysucc_2022/meta_clinical_patient.txt b/public/crc_sysucc_2022/meta_clinical_patient.txt new file mode 100644 index 000000000..187a7f8c7 --- /dev/null +++ b/public/crc_sysucc_2022/meta_clinical_patient.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: crc_sysucc_2022 +genetic_alteration_type: CLINICAL +datatype: PATIENT_ATTRIBUTES +data_filename: data_clinical_patient.txt diff --git a/public/crc_sysucc_2022/meta_clinical_sample.txt b/public/crc_sysucc_2022/meta_clinical_sample.txt new file mode 100644 index 000000000..3772262ce --- /dev/null +++ b/public/crc_sysucc_2022/meta_clinical_sample.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: crc_sysucc_2022 +genetic_alteration_type: CLINICAL +datatype: SAMPLE_ATTRIBUTES +data_filename: data_clinical_sample.txt diff --git a/public/crc_sysucc_2022/meta_cna.txt b/public/crc_sysucc_2022/meta_cna.txt new file mode 100644 index 000000000..5f7e77011 --- /dev/null +++ b/public/crc_sysucc_2022/meta_cna.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: crc_sysucc_2022 +genetic_alteration_type: COPY_NUMBER_ALTERATION +datatype: DISCRETE +stable_id: cna +show_profile_in_analysis_tab: true +profile_description: Putative copy-number from GISTIC 2.0. Values: -2 = homozygous deletion; -1 = hemizygous deletion; 0 = neutral / no change; 1 = gain; 2 = high level amplification. +profile_name: Putative copy-number alterations from GISTIC +data_filename: data_cna.txt diff --git a/public/crc_sysucc_2022/meta_gene_panel_matrix.txt b/public/crc_sysucc_2022/meta_gene_panel_matrix.txt new file mode 100644 index 000000000..3aaef850a --- /dev/null +++ b/public/crc_sysucc_2022/meta_gene_panel_matrix.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: crc_sysucc_2022 +genetic_alteration_type: GENE_PANEL_MATRIX +datatype: GENE_PANEL_MATRIX +data_filename: data_gene_panel_matrix.txt diff --git a/public/crc_sysucc_2022/meta_mutations.txt b/public/crc_sysucc_2022/meta_mutations.txt new file mode 100644 index 000000000..9dcd2fe50 --- /dev/null +++ b/public/crc_sysucc_2022/meta_mutations.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: crc_sysucc_2022 +genetic_alteration_type: MUTATION_EXTENDED +datatype: MAF +stable_id: mutations +show_profile_in_analysis_tab: true +profile_description: Mutation data from whole exome sequencing. +profile_name: Mutations +data_filename: data_mutations.txt diff --git a/public/crc_sysucc_2022/meta_study.txt b/public/crc_sysucc_2022/meta_study.txt new file mode 100644 index 000000000..bd2a235f7 --- /dev/null +++ b/public/crc_sysucc_2022/meta_study.txt @@ -0,0 +1,7 @@ +type_of_cancer: coadread +cancer_study_identifier: crc_sysucc_2022 +name: Exome Profiling of Colorectal Cancer Patients (SYSUCC, Nat Commun 2022) +description: Whole exome sequencing on 1,015 Chinese colorectal cancer patients, analyzing both tumor and matched normal tissues using the HapOnco WESplus capture-based next-generation sequencing (NGS) platform as part of the ChangKang Project. +citation: Qi et al. Nat Commun 2022 +pmid: 35487942 +groups: PUBLIC \ No newline at end of file diff --git a/public/hnsc_a5consortium_2025/case_lists/cases_all.txt b/public/hnsc_a5consortium_2025/case_lists/cases_all.txt new file mode 100644 index 000000000..274eb18bd --- /dev/null +++ b/public/hnsc_a5consortium_2025/case_lists/cases_all.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: hnsc_a5consortium_2025 +stable_id: hnsc_a5consortium_2025_all +case_list_name: All samples +case_list_description: All samples (94 samples) +case_list_category: all_cases_in_study +case_list_ids: E186-P1 E146-M1 E168-P1 E198-P1 E188-P1 E131-P1 E170-P1 E201-P1 E185-P1 E196-P1 E126-P1 E158-P1 E157-P1 E166-M1 E134-P1 E195-P1 E144-P1 E158-M1 E197-M1 E226-P1 E200-P1 E171-M1 E192-P1 E225-P1 E229-P1 E229-P2 E204-M1 E161-P1 E143-M2 E150-P1 E142-P1 E159-M1 E159-M2 E129-P1 E121-M1 E159-P2 E159-P1 E162-P1 E167-M1 E180-P1 E165-P1 E153-P1 E223-P1 E231-P1 E190-P1 E125-P1 E146-P1 E155-P1 E019-P1 E128-P2 E128-P1 E184-P1 E233-P1 E135-P1 E141-P1 E132-M1 E160-P1 E164-P1 E183-P1 E230-P1 E228-P1 E149-P1 E122-R2 E148-P1 E152-P1 E122-R1 E225-M1 E120-P1 E136-P1 E136-P2 E143-M1 E132-R1 E151-P1 E147-P1 E130-P1 E167-M2 E163-P1 E143-P1 E203-P1 E189-P1 E199-R1 E156-P1 E169-M2 E140-P1 E169-M1 E138-P1 E127-P1 E193-R1 E179-P1 E123-M1 E224-P1 E133-P1 E202-P1 E182-P1 \ No newline at end of file diff --git a/public/hnsc_a5consortium_2025/case_lists/cases_sequenced.txt b/public/hnsc_a5consortium_2025/case_lists/cases_sequenced.txt new file mode 100644 index 000000000..ef2e86165 --- /dev/null +++ b/public/hnsc_a5consortium_2025/case_lists/cases_sequenced.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: hnsc_a5consortium_2025 +stable_id: hnsc_a5consortium_2025_sequenced +case_list_name: Samples with mutation data +case_list_description: Samples with mutation data (94 samples) +case_list_category: all_cases_with_mutation_data +case_list_ids: E186-P1 E146-M1 E168-P1 E198-P1 E201-P1 E158-P1 E157-P1 E166-M1 E226-P1 E200-P1 E225-P1 E204-M1 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hnsc_a5consortium_2025_sv +case_list_name: Samples with SV data +case_list_description: All samples with SV data (94 samples) +case_list_category: all_cases_with_sv_data +case_list_ids: E196-1 E170-1 E168-1 E224-1 E166-1 E165-1 E130-1 E132-1 E132-2 E191-1 E223-1 E186-1 E142-1 E192-1 E182-1 E185-1 E195-1 E199-1 E158-1 E158-2 E141-1 E120-1 E125-1 E128-1 E128-2 E155-1 E146-1 E204-1 E146-2 E148-1 E145-1 E200-1 E135-1 E156-1 E160-1 E133-1 E136-1 E136-2 E167-1 E229-2 E229-1 E151-1 E226-1 E152-1 E203-1 E167-2 E231-1 E138-1 E225-2 E225-1 E126-1 E019-1 E169-1 E169-2 E180-1 E164-1 E190-1 E188-1 E162-1 E193-1 E143-1 E143-2 E143-3 E149-1 E122-2 E179-1 E140-1 E183-1 E197-1 E171-1 E159-4 E159-1 E154-1 E159-3 E159-2 E124-1 E198-1 E122-1 E144-1 E127-1 E147-1 E181-1 E129-1 E157-1 E184-1 E201-1 E161-1 E189-1 E131-1 E163-1 E153-1 E134-1 E150-1 E228-1 E123-1 E121-1 E227-1 E230-1 E202-1 \ No newline at end of file diff --git a/public/hnsc_a5consortium_2025/data_clinical_patient.txt 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a/public/hnsc_a5consortium_2025/data_mutations.txt b/public/hnsc_a5consortium_2025/data_mutations.txt new file mode 100644 index 000000000..3f1fe23ce --- /dev/null +++ b/public/hnsc_a5consortium_2025/data_mutations.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:d8c81e3e998bcc84d11f3183b10706add5967c1c7b05d0354db4ef00b5723ec1 +size 95911966 diff --git a/public/hnsc_a5consortium_2025/data_sv.txt b/public/hnsc_a5consortium_2025/data_sv.txt new file mode 100644 index 000000000..1bbb167f7 --- /dev/null +++ b/public/hnsc_a5consortium_2025/data_sv.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:30618388aef6146b6c69fa8b0b111a42a16abbf6324a7c26cb8cf9973ab723cd +size 585893 diff --git a/public/hnsc_a5consortium_2025/meta_clinical_patient.txt b/public/hnsc_a5consortium_2025/meta_clinical_patient.txt new file mode 100644 index 000000000..beec0d058 --- /dev/null +++ b/public/hnsc_a5consortium_2025/meta_clinical_patient.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: hnsc_a5consortium_2025 +genetic_alteration_type: CLINICAL +datatype: PATIENT_ATTRIBUTES +data_filename: data_clinical_patient.txt \ No newline at end of file diff --git a/public/hnsc_a5consortium_2025/meta_clinical_sample.txt b/public/hnsc_a5consortium_2025/meta_clinical_sample.txt new file mode 100644 index 000000000..b4dceb732 --- /dev/null +++ b/public/hnsc_a5consortium_2025/meta_clinical_sample.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: hnsc_a5consortium_2025 +genetic_alteration_type: CLINICAL +datatype: SAMPLE_ATTRIBUTES +data_filename: data_clinical_sample.txt \ No newline at end of file diff --git a/public/hnsc_a5consortium_2025/meta_gene_panel_matrix.txt b/public/hnsc_a5consortium_2025/meta_gene_panel_matrix.txt new file mode 100644 index 000000000..89be60fe6 --- /dev/null +++ b/public/hnsc_a5consortium_2025/meta_gene_panel_matrix.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: hnsc_a5consortium_2025 +genetic_alteration_type: GENE_PANEL_MATRIX +datatype: GENE_PANEL_MATRIX +data_filename: data_gene_panel_matrix.txt diff --git a/public/hnsc_a5consortium_2025/meta_mrna_seq_cpm.txt b/public/hnsc_a5consortium_2025/meta_mrna_seq_cpm.txt new file mode 100644 index 000000000..2dac635e7 --- /dev/null +++ b/public/hnsc_a5consortium_2025/meta_mrna_seq_cpm.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: hnsc_a5consortium_2025 +genetic_alteration_type: MRNA_EXPRESSION +datatype: CONTINUOUS +stable_id: mrna_seq_cpm +show_profile_in_analysis_tab: false +profile_name: mRNA expression (RNA Seq CPM) +profile_description: Expression levels for genes in 91 HNSC cases (RNA Seq CPM). +data_filename: data_mrna_seq_cpm.txt diff --git a/public/hnsc_a5consortium_2025/meta_mrna_seq_cpm_zscores_ref_all_samples.txt b/public/hnsc_a5consortium_2025/meta_mrna_seq_cpm_zscores_ref_all_samples.txt new file mode 100644 index 000000000..db2f3bb45 --- /dev/null +++ b/public/hnsc_a5consortium_2025/meta_mrna_seq_cpm_zscores_ref_all_samples.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: hnsc_a5consortium_2025 +genetic_alteration_type: MRNA_EXPRESSION +datatype: Z-SCORE +stable_id: mrna_seq_cpm_all_sample_Zscores +show_profile_in_analysis_tab: true +profile_description: Log-transformed mRNA z-Scores compared to the expression distribution of all samples (RNA Seq CPM). +profile_name: mRNA expression z-scores relative to all samples (log RNA Seq CPM) +data_filename: data_mrna_seq_cpm_zscores_ref_all_samples.txt diff --git a/public/hnsc_a5consortium_2025/meta_mutations.txt b/public/hnsc_a5consortium_2025/meta_mutations.txt new file mode 100644 index 000000000..53ed479d2 --- /dev/null +++ b/public/hnsc_a5consortium_2025/meta_mutations.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: hnsc_a5consortium_2025 +genetic_alteration_type: MUTATION_EXTENDED +datatype: MAF +stable_id: mutations +show_profile_in_analysis_tab: true +profile_name: Mutations +profile_description: Mutations data from whole genome sequencing of 94 HNSC tumor/normal pairs. +data_filename: data_mutations.txt diff --git a/public/hnsc_a5consortium_2025/meta_study.txt b/public/hnsc_a5consortium_2025/meta_study.txt new file mode 100644 index 000000000..a9e46b1cf --- /dev/null +++ b/public/hnsc_a5consortium_2025/meta_study.txt @@ -0,0 +1,7 @@ +type_of_cancer: hnsc +cancer_study_identifier: hnsc_a5consortium_2025 +name: Hereditary SDHB-Mutant Pheochromocytomas and Paragangliomas (A5 Consortium, Nature 2025) +description: Whole genome sequencing of 94 Hereditary SDHB-mutant pheochromocytomas (PC) and paragangliomas (PG) tumors and their matched normals. +citation: Aidan et al. Nature 2025 +pmid: 38978571 +groups: PUBLIC \ No newline at end of file diff --git a/public/hnsc_a5consortium_2025/meta_sv.txt b/public/hnsc_a5consortium_2025/meta_sv.txt new file mode 100755 index 000000000..d609a81fc --- /dev/null +++ b/public/hnsc_a5consortium_2025/meta_sv.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: hnsc_a5consortium_2025 +genetic_alteration_type: STRUCTURAL_VARIANT +datatype: SV +stable_id: structural_variants +show_profile_in_analysis_tab: true +profile_name: Structural variants +profile_description: Structural Variant Data. +data_filename: data_sv.txt \ No newline at end of file diff --git a/public/luad_cas_2020/case_lists/cases_all.txt b/public/luad_cas_2020/case_lists/cases_all.txt new file mode 100644 index 000000000..c23876b9f --- /dev/null +++ b/public/luad_cas_2020/case_lists/cases_all.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: luad_cas_2020 +stable_id: luad_cas_2020_all +case_list_name: All samples +case_list_description: All samples (103 samples) +case_list_category: all_cases_in_study +case_list_ids: LUAD_39 LUAD_38 LUAD_37 LUAD_36 LUAD_35 LUAD_34 LUAD_33 LUAD_32 LUAD_31 LUAD_30 LUAD_102 LUAD_103 LUAD_100 LUAD_101 LUAD_44 LUAD_48 LUAD_06 LUAD_07 LUAD_04 LUAD_05 LUAD_02 LUAD_03 LUAD_01 LUAD_42 LUAD_43 LUAD_40 LUAD_41 LUAD_46 LUAD_47 LUAD_08 LUAD_09 LUAD_28 LUAD_29 LUAD_24 LUAD_25 LUAD_26 LUAD_27 LUAD_20 LUAD_21 LUAD_22 LUAD_23 LUAD_49 LUAD_73 LUAD_72 LUAD_71 LUAD_70 LUAD_77 LUAD_76 LUAD_75 LUAD_74 LUAD_79 LUAD_78 LUAD_19 LUAD_18 LUAD_11 LUAD_10 LUAD_13 LUAD_12 LUAD_15 LUAD_14 LUAD_17 LUAD_16 LUAD_91 LUAD_90 LUAD_93 LUAD_92 LUAD_95 LUAD_94 LUAD_97 LUAD_96 LUAD_99 LUAD_98 LUAD_60 LUAD_61 LUAD_62 LUAD_63 LUAD_64 LUAD_65 LUAD_66 LUAD_67 LUAD_68 LUAD_69 LUAD_45 LUAD_88 LUAD_89 LUAD_86 LUAD_87 LUAD_84 LUAD_85 LUAD_82 LUAD_83 LUAD_80 LUAD_81 LUAD_59 LUAD_58 LUAD_55 LUAD_54 LUAD_57 LUAD_56 LUAD_51 LUAD_50 LUAD_53 LUAD_52 diff --git a/public/luad_cas_2020/case_lists/cases_expression.txt b/public/luad_cas_2020/case_lists/cases_expression.txt new file mode 100644 index 000000000..270d983f4 --- /dev/null +++ b/public/luad_cas_2020/case_lists/cases_expression.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: luad_cas_2020 +stable_id: luad_cas_2020_rna_seq_mrna +case_list_name: Samples with gene expression data +case_list_description: Samples with gene expression data by RNA-Seq +case_list_category: all_cases_with_mrna_rnaseq_data +case_list_ids: LUAD_17 LUAD_18 LUAD_19 LUAD_20 LUAD_22 LUAD_23 LUAD_24 LUAD_25 LUAD_26 LUAD_27 LUAD_28 LUAD_29 LUAD_30 LUAD_33 LUAD_34 LUAD_35 LUAD_37 LUAD_38 LUAD_39 LUAD_40 LUAD_41 LUAD_42 LUAD_43 LUAD_44 LUAD_45 LUAD_46 LUAD_47 LUAD_48 LUAD_49 LUAD_50 LUAD_51 LUAD_52 LUAD_53 LUAD_54 LUAD_55 LUAD_56 LUAD_57 LUAD_58 LUAD_60 LUAD_61 LUAD_63 LUAD_66 LUAD_67 LUAD_68 LUAD_71 LUAD_72 LUAD_73 LUAD_74 LUAD_89 LUAD_90 LUAD_91 diff --git a/public/luad_cas_2020/case_lists/cases_sequenced.txt b/public/luad_cas_2020/case_lists/cases_sequenced.txt new file mode 100644 index 000000000..bcb74c6c8 --- /dev/null +++ b/public/luad_cas_2020/case_lists/cases_sequenced.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: luad_cas_2020 +stable_id: luad_cas_2020_sequenced +case_list_name: Samples with mutation data +case_list_description: Samples with mutation data (103 samples) +case_list_category: all_cases_with_mutation_data +case_list_ids: LUAD_102 LUAD_103 LUAD_100 LUAD_101 LUAD_06 LUAD_07 LUAD_04 LUAD_05 LUAD_02 LUAD_03 LUAD_01 LUAD_08 LUAD_09 LUAD_73 LUAD_72 LUAD_71 LUAD_70 LUAD_77 LUAD_76 LUAD_75 LUAD_74 LUAD_79 LUAD_78 LUAD_60 LUAD_61 LUAD_62 LUAD_63 LUAD_64 LUAD_65 LUAD_66 LUAD_67 LUAD_68 LUAD_69 LUAD_59 LUAD_58 LUAD_55 LUAD_54 LUAD_57 LUAD_56 LUAD_51 LUAD_50 LUAD_53 LUAD_52 LUAD_39 LUAD_38 LUAD_37 LUAD_36 LUAD_35 LUAD_34 LUAD_33 LUAD_32 LUAD_31 LUAD_30 LUAD_48 LUAD_49 LUAD_42 LUAD_43 LUAD_40 LUAD_41 LUAD_46 LUAD_47 LUAD_44 LUAD_45 LUAD_28 LUAD_29 LUAD_24 LUAD_25 LUAD_26 LUAD_27 LUAD_20 LUAD_21 LUAD_22 LUAD_23 LUAD_19 LUAD_18 LUAD_11 LUAD_10 LUAD_13 LUAD_12 LUAD_15 LUAD_14 LUAD_17 LUAD_16 LUAD_91 LUAD_90 LUAD_93 LUAD_92 LUAD_95 LUAD_94 LUAD_97 LUAD_96 LUAD_99 LUAD_98 LUAD_88 LUAD_89 LUAD_86 LUAD_87 LUAD_84 LUAD_85 LUAD_82 LUAD_83 LUAD_80 LUAD_81 diff --git a/public/luad_cas_2020/data_clinical_patient.txt b/public/luad_cas_2020/data_clinical_patient.txt new file mode 100644 index 000000000..b5e22f7db --- /dev/null +++ b/public/luad_cas_2020/data_clinical_patient.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:b270ddcac9ba7fe6954096823c2e8fc306ef0e47ec079797fe04bf67ccc64e6e +size 8413 diff --git a/public/luad_cas_2020/data_clinical_sample.txt b/public/luad_cas_2020/data_clinical_sample.txt new file mode 100644 index 000000000..dae3faeaf --- /dev/null +++ b/public/luad_cas_2020/data_clinical_sample.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:02e69957cf8321d4b806d00b7648e0699d903b2a7fd9697794af8c25c7a1c8f6 +size 20909 diff --git a/public/luad_cas_2020/data_gene_panel_matrix.txt b/public/luad_cas_2020/data_gene_panel_matrix.txt new file mode 100644 index 000000000..09710dc89 --- /dev/null +++ b/public/luad_cas_2020/data_gene_panel_matrix.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:d1dfca1001fd32752b5e7e1920361cf7256ce3f8baae915a129454f7be08f352 +size 1362 diff --git a/public/luad_cas_2020/data_mrna_seq_fpkm.txt b/public/luad_cas_2020/data_mrna_seq_fpkm.txt new file mode 100644 index 000000000..c36b10f6e --- /dev/null +++ b/public/luad_cas_2020/data_mrna_seq_fpkm.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:f9add93f1d395e63689b6dcb18ee80581503e83132afebcc48328c31d81113ce +size 8955499 diff --git a/public/luad_cas_2020/data_mrna_seq_fpkm_zscores_ref_all_samples.txt b/public/luad_cas_2020/data_mrna_seq_fpkm_zscores_ref_all_samples.txt new file mode 100644 index 000000000..f4ebe7887 --- /dev/null +++ b/public/luad_cas_2020/data_mrna_seq_fpkm_zscores_ref_all_samples.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:50d09e1d1f1ae859c1b9dd1267a5c499ba5030bf1375456e7418c580df620015 +size 6019989 diff --git a/public/luad_cas_2020/data_mutational_signatures_contribution_SBS.txt b/public/luad_cas_2020/data_mutational_signatures_contribution_SBS.txt new file mode 100644 index 000000000..9e389f65e --- /dev/null +++ b/public/luad_cas_2020/data_mutational_signatures_contribution_SBS.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:efe3e23c5d075ba92504976921218f929a1cc96cc04feec9ca14426683a14711 +size 13577 diff --git a/public/luad_cas_2020/data_mutations.txt b/public/luad_cas_2020/data_mutations.txt new file mode 100644 index 000000000..3058afae6 --- /dev/null +++ b/public/luad_cas_2020/data_mutations.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:1e67c072572ee851e612a98c2617ae6fae8723d3dbdc479617fa8f72ce7957b2 +size 3885177 diff --git a/public/luad_cas_2020/meta_clinical_patient.txt b/public/luad_cas_2020/meta_clinical_patient.txt new file mode 100644 index 000000000..eb8b47994 --- /dev/null +++ b/public/luad_cas_2020/meta_clinical_patient.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: luad_cas_2020 +genetic_alteration_type: CLINICAL +datatype: PATIENT_ATTRIBUTES +data_filename: data_clinical_patient.txt \ No newline at end of file diff --git a/public/luad_cas_2020/meta_clinical_sample.txt b/public/luad_cas_2020/meta_clinical_sample.txt new file mode 100644 index 000000000..ae779989b --- /dev/null +++ b/public/luad_cas_2020/meta_clinical_sample.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: luad_cas_2020 +genetic_alteration_type: CLINICAL +datatype: SAMPLE_ATTRIBUTES +data_filename: data_clinical_sample.txt \ No newline at end of file diff --git a/public/luad_cas_2020/meta_gene_panel_matrix.txt b/public/luad_cas_2020/meta_gene_panel_matrix.txt new file mode 100644 index 000000000..6e2ef4867 --- /dev/null +++ b/public/luad_cas_2020/meta_gene_panel_matrix.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: luad_cas_2020 +data_filename: data_gene_panel_matrix.txt +genetic_alteration_type: GENE_PANEL_MATRIX +datatype: GENE_PANEL_MATRIX diff --git a/public/luad_cas_2020/meta_mrna_seq_fpkm.txt b/public/luad_cas_2020/meta_mrna_seq_fpkm.txt new file mode 100644 index 000000000..94520acdd --- /dev/null +++ b/public/luad_cas_2020/meta_mrna_seq_fpkm.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: luad_cas_2020 +data_filename: data_mrna_seq_fpkm.txt +stable_id: mrna_seq_fpkm +genetic_alteration_type: MRNA_EXPRESSION +datatype: CONTINUOUS +profile_name: mRNA expression (FPKM) +profile_description: mRNA expression from capture (RNA Seq FPKM) +show_profile_in_analysis_tab: false diff --git a/public/luad_cas_2020/meta_mutational_signatures_contribution_SBS.txt b/public/luad_cas_2020/meta_mutational_signatures_contribution_SBS.txt new file mode 100644 index 000000000..8669df72a --- /dev/null +++ b/public/luad_cas_2020/meta_mutational_signatures_contribution_SBS.txt @@ -0,0 +1,12 @@ +cancer_study_identifier: luad_cas_2020 +genetic_alteration_type: GENERIC_ASSAY +generic_assay_type: MUTATIONAL_SIGNATURE +datatype: LIMIT-VALUE +stable_id: mutational_signatures_contribution_SBS +profile_name: Mutational signatures contribution SBS +profile_description: Mutational signature contribution +data_filename: data_mutational_signatures_contribution_SBS.txt +show_profile_in_analysis_tab: true +generic_entity_meta_properties: NAME,DESCRIPTION,URL +value_sort_order: DESC +pivot_threshold_value: 0.0 \ No newline at end of file diff --git a/public/luad_cas_2020/meta_mutations.txt b/public/luad_cas_2020/meta_mutations.txt new file mode 100644 index 000000000..5292a5a2c --- /dev/null +++ b/public/luad_cas_2020/meta_mutations.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: luad_cas_2020 +genetic_alteration_type: MUTATION_EXTENDED +datatype: MAF +stable_id: mutations +show_profile_in_analysis_tab: true +profile_name: Mutations +profile_description: Mutation data from whole exome sequencing +data_filename: data_mutations.txt \ No newline at end of file diff --git a/public/luad_cas_2020/meta_study.txt b/public/luad_cas_2020/meta_study.txt new file mode 100644 index 000000000..0654eb940 --- /dev/null +++ b/public/luad_cas_2020/meta_study.txt @@ -0,0 +1,6 @@ +type_of_cancer: luad +cancer_study_identifier: luad_cas_2020 +name: Lung Adenocarcinoma (CAS, Cell 2020) +description: Whole-exome sequencing of 103 lung adenocarcinoma cases and their matched normals in Chinese patients. +pmid: 32649877 +citation: Xu, Jun-Yu et al. Cell 2020 \ No newline at end of file diff --git a/public/luad_cas_2020/readme.md b/public/luad_cas_2020/readme.md new file mode 100644 index 000000000..880f6b469 --- /dev/null +++ b/public/luad_cas_2020/readme.md @@ -0,0 +1,25 @@ +Study Curation and Transformation + +General information +Reference publication: 32649877 +Reference genome used: GRCh38 + +Clinical Data +Supplementary file: Supplementary Table S1, Table S1A +Supplementary table title: Clinical Characteristics of LUAD Patients +Sample size: 103 Chinese LUAD patients + + +Mutation Data +Supplementary file: Supplementary Table S2, Table S2A +Supplementary table title: Genetic alterations and mutational signatures in 103 LUAD patients- Somatic mutations in 103 LUAD patients called by WES. +Reference genome: GRCh37 + +Expression Data +Supplementary file: Table S3, Table S3A +Supplementary table title: mRNA-Protein Correlation in Tumors and Paired NATs- A list of 16,188 genes with FPKM > 1 in 51 tumors and 49 NATs identified by RNA-Seq. + + +Mutational Signatures Data +Supplementary file: Supplementary Table S2, Table S2C +Supplementary table title: Genetic alterations and mutational signatures in 103 LUAD patients- Contributions of 30 COSMIC signatures in 103 LUAD patients. \ No newline at end of file diff --git a/public/pancan_pdx_uthsa_2023/case_lists/cases_all.txt b/public/pancan_pdx_uthsa_2023/case_lists/cases_all.txt new file mode 100755 index 000000000..25ee2a5e8 --- /dev/null +++ b/public/pancan_pdx_uthsa_2023/case_lists/cases_all.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: pancan_pdx_uthsa_2023 +stable_id: pancan_pdx_uthsa_2023_all +case_list_name: All samples +case_list_description: All samples (136 samples) +case_list_category: all_cases_in_study +case_list_ids: 1739_PDX 1739_PT 1753_PDX 1753_PT 1754_PDX 1754_PT 1763_PDX 1763_PT 1792_PDX 1792_PT 1795_PDX 1795_PT 1796_PDX 1796_PT 1823_PDX 1823_PT 1826_PDX 1826_PT 1853_PDX 1853_PT 1907_PDX 1907_PT 1912_PDX 1912_PT 1913_PDX 1913_PT 1917_PDX 1917_PT 1922_PDX 1922_PT 1925_PDX 1925_PT 1932_PDX 1932_PT 1939-2_PDX 1939-2_PT 1939_PDX 1939_PT 1957_PDX 1957_PT 1959_PDX 1959_PT 1960_PDX 1960_PT 1979_PDX 1979_PT 1981_PDX 1981_PT 1982_PDX 1982_PT 2035_PDX 2035_PT 2050_PDX 2050_PT 2083_PDX 2083_PT 2084_PDX 2084_PT 2129_PDX 2129_PT 2197_PDX 2197_PT 2237_PDX 2237_PT 2264_PDX 2264_PT 2324_PDX 2324_PT 29_PDX 29_PT 462_PDX 462_PT 466_PDX 466_PT 471_PDX 471_PT 494_PDX 494_PT 498_PDX 498_PT 500_PDX 500_PT 511_PDX 511_PT 512_PDX 512_PT 516_PDX 516_PT 522_PDX 522_PT 529_PDX 529_PT 530_PDX 530_PT 532_PDX 532_PT 533_PDX 533_PT 543_PDX 543_PT 54_PDX 54_PT 556_PDX 556_PT 560-LM_PDX 560-LM_PT 560-SM_PDX 560-SM_PT 560_PDX 560_PT 561_PDX 561_PT 564_PDX 564_PT 585_PDX 585_PT 652_PDX 652_PT 655_PDX 655_PT 668_PDX 668_PT 707_PDX 707_PT 883129_PDX 883129_PT 891173_PDX 891173_PT 891760_PDX 891760_PT 892257_PDX 892257_PT 895452_PDX 895452_PT 896751_PDX 896751_PT diff --git a/public/pancan_pdx_uthsa_2023/case_lists/cases_sequenced.txt b/public/pancan_pdx_uthsa_2023/case_lists/cases_sequenced.txt new file mode 100755 index 000000000..cf83b66d1 --- /dev/null +++ b/public/pancan_pdx_uthsa_2023/case_lists/cases_sequenced.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: pancan_pdx_uthsa_2023 +stable_id: pancan_pdx_uthsa_2023_sequenced +case_list_name: Samples with mutation data +case_list_description: Samples with mutation data (136 samples) +case_list_category: all_cases_with_mutation_data +case_list_ids: 1739_PDX 1739_PT 1753_PDX 1753_PT 1754_PDX 1754_PT 1763_PDX 1763_PT 1792_PDX 1792_PT 1795_PDX 1795_PT 1796_PDX 1796_PT 1823_PDX 1823_PT 1826_PDX 1826_PT 1853_PDX 1853_PT 1907_PDX 1907_PT 1912_PDX 1912_PT 1913_PDX 1913_PT 1917_PDX 1917_PT 1922_PDX 1922_PT 1925_PDX 1925_PT 1932_PDX 1932_PT 1939-2_PDX 1939-2_PT 1939_PDX 1939_PT 1957_PDX 1957_PT 1959_PDX 1959_PT 1960_PDX 1960_PT 1979_PDX 1979_PT 1981_PDX 1981_PT 1982_PDX 1982_PT 2035_PDX 2035_PT 2050_PDX 2050_PT 2083_PDX 2083_PT 2084_PDX 2084_PT 2129_PDX 2129_PT 2197_PDX 2197_PT 2237_PDX 2237_PT 2264_PDX 2264_PT 2324_PDX 2324_PT 29_PDX 29_PT 462_PDX 462_PT 466_PDX 466_PT 471_PDX 471_PT 494_PDX 494_PT 498_PDX 498_PT 500_PDX 500_PT 511_PDX 511_PT 512_PDX 512_PT 516_PDX 516_PT 522_PDX 522_PT 529_PDX 529_PT 530_PDX 530_PT 532_PDX 532_PT 533_PDX 533_PT 543_PDX 543_PT 54_PDX 54_PT 556_PDX 556_PT 560-LM_PDX 560-LM_PT 560-SM_PDX 560-SM_PT 560_PDX 560_PT 561_PDX 561_PT 564_PDX 564_PT 585_PDX 585_PT 652_PDX 652_PT 655_PDX 655_PT 668_PDX 668_PT 707_PDX 707_PT 883129_PDX 883129_PT 891173_PDX 891173_PT 891760_PDX 891760_PT 892257_PDX 892257_PT 895452_PDX 895452_PT 896751_PDX 896751_PT diff --git a/public/pancan_pdx_uthsa_2023/case_lists/cases_sv.txt b/public/pancan_pdx_uthsa_2023/case_lists/cases_sv.txt new file mode 100755 index 000000000..29ed0729b --- /dev/null +++ b/public/pancan_pdx_uthsa_2023/case_lists/cases_sv.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: pancan_pdx_uthsa_2023 +stable_id: pancan_pdx_uthsa_2023_sv +case_list_name: Samples with SV data 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b/public/pancan_pdx_uthsa_2023/data_mrna_seq_tpm_zscores_ref_all_samples.txt new file mode 100644 index 000000000..9e53f3d03 --- /dev/null +++ b/public/pancan_pdx_uthsa_2023/data_mrna_seq_tpm_zscores_ref_all_samples.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:5f885e9018f5acca2fb3a423bf0ed50efba4c50eee9264b8f0de23e400c11b0c +size 36648121 diff --git a/public/pancan_pdx_uthsa_2023/data_mutations.txt b/public/pancan_pdx_uthsa_2023/data_mutations.txt new file mode 100644 index 000000000..456fdf8be --- /dev/null +++ b/public/pancan_pdx_uthsa_2023/data_mutations.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:e249946cb8bbd868b78d1f29f9654c5b7ccdfeb49c3fe893065756313d2c3788 +size 1007687 diff --git a/public/pancan_pdx_uthsa_2023/data_sv.txt b/public/pancan_pdx_uthsa_2023/data_sv.txt new file mode 100644 index 000000000..d8982d2b7 --- /dev/null +++ b/public/pancan_pdx_uthsa_2023/data_sv.txt @@ -0,0 +1,3 @@ +version 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a/public/pancan_pdx_uthsa_2023/meta_cna_hg19_seg.txt b/public/pancan_pdx_uthsa_2023/meta_cna_hg19_seg.txt new file mode 100644 index 000000000..33fd9553f --- /dev/null +++ b/public/pancan_pdx_uthsa_2023/meta_cna_hg19_seg.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: pancan_pdx_uthsa_2023 +genetic_alteration_type: COPY_NUMBER_ALTERATION +datatype: SEG +reference_genome_id: hg38 +description: Somatic CNA data (copy number ratio from tumor samples minus ratio from matched normals). +data_filename: data_cna_hg19.seg diff --git a/public/pancan_pdx_uthsa_2023/meta_mrna_seq_tpm.txt b/public/pancan_pdx_uthsa_2023/meta_mrna_seq_tpm.txt new file mode 100644 index 000000000..976ab7962 --- /dev/null +++ b/public/pancan_pdx_uthsa_2023/meta_mrna_seq_tpm.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: pancan_pdx_uthsa_2023 +genetic_alteration_type: MRNA_EXPRESSION +datatype: CONTINUOUS +stable_id: rna_seq_mrna +show_profile_in_analysis_tab: true +profile_name: mRNA expression data +profile_description: mRNA expression TPM normalized levels. +data_filename: data_mrna_seq_tpm.txt diff --git a/public/pancan_pdx_uthsa_2023/meta_mrna_seq_tpm_zscores_ref_all_samples.txt b/public/pancan_pdx_uthsa_2023/meta_mrna_seq_tpm_zscores_ref_all_samples.txt new file mode 100644 index 000000000..7a3dfe2a3 --- /dev/null +++ b/public/pancan_pdx_uthsa_2023/meta_mrna_seq_tpm_zscores_ref_all_samples.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: pancan_pdx_uthsa_2023 +genetic_alteration_type: MRNA_EXPRESSION +datatype: Z-SCORE +stable_id: rna_seq_mrna_median_Zscores +show_profile_in_analysis_tab: true +profile_name: mRNA expression z-scores +profile_description:Expression levels z-scores +data_filename: data_mrna_seq_tpm_zscores_ref_all_samples diff --git a/public/pancan_pdx_uthsa_2023/meta_mutations.txt b/public/pancan_pdx_uthsa_2023/meta_mutations.txt new file mode 100644 index 000000000..5fdc1c1d5 --- /dev/null +++ b/public/pancan_pdx_uthsa_2023/meta_mutations.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: pancan_pdx_uthsa_2023 +stable_id: mutations +profile_name: Mutations +profile_description: Somatic mutations from whole exome and whole genome sequencing of 68 tumor/normal pairs. +genetic_alteration_type: MUTATION_EXTENDED +datatype: MAF +show_profile_in_analysis_tab: true +data_filename: data_mutations.txt diff --git a/public/pancan_pdx_uthsa_2023/meta_study.txt b/public/pancan_pdx_uthsa_2023/meta_study.txt new file mode 100644 index 000000000..abb93e144 --- /dev/null +++ b/public/pancan_pdx_uthsa_2023/meta_study.txt @@ -0,0 +1,8 @@ +type_of_cancer: mixed +cancer_study_identifier: pancan_pdx_uthsa_2023 +name: Pediatric solid tumor PDXs (UTHSA, Nat Commun 2023) +description: Whole genome and whole exome sequencing of 65 patient tumors and 68 patient-derived xenografts from 14 Wilms tumors, 13 Hepatoblastomas, 12 Osteosarcomas, 10 Germ cell tumors, and 19 others solid tumors. +pmid: 37990009 +citation: He, Funan et al. Nat Commun 2023 +reference_genome: hg38 +groups: PUBLIC \ No newline at end of file diff --git a/public/pancan_pdx_uthsa_2023/meta_sv.txt b/public/pancan_pdx_uthsa_2023/meta_sv.txt new file mode 100755 index 000000000..12d54f14a --- /dev/null +++ b/public/pancan_pdx_uthsa_2023/meta_sv.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: pancan_pdx_uthsa_2023 +genetic_alteration_type: STRUCTURAL_VARIANT +datatype: SV +stable_id: structural_variants +show_profile_in_analysis_tab: true +profile_name: Structural variants +profile_description: Structural Variant Data. +data_filename: data_sv.txt \ No newline at end of file diff --git a/public/sclc_uc_2024/case_lists/cases_all.txt b/public/sclc_uc_2024/case_lists/cases_all.txt new file mode 100644 index 000000000..1d19522cd --- /dev/null +++ b/public/sclc_uc_2024/case_lists/cases_all.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: sclc_uc_2024 +stable_id: sclc_uc_2024_all +case_list_name: All samples +case_list_description: All samples (160 samples) 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a/public/sclc_uc_2024/data_mrna_seq_fpkm_zscores_ref_all_samples.txt b/public/sclc_uc_2024/data_mrna_seq_fpkm_zscores_ref_all_samples.txt new file mode 100644 index 000000000..d2ba6e14c --- /dev/null +++ b/public/sclc_uc_2024/data_mrna_seq_fpkm_zscores_ref_all_samples.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:8c95b4d72130989c230d8bc619955ddf7e8f85c9a73f8173735d52bc01256294 +size 16394817 diff --git a/public/sclc_uc_2024/data_mutations.txt b/public/sclc_uc_2024/data_mutations.txt new file mode 100644 index 000000000..cc3e5172f --- /dev/null +++ b/public/sclc_uc_2024/data_mutations.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:b27dfb3c24055056cb3f9dc92a93b15aa9ce40ec0ed8c27c5c192db463b69ac7 +size 6575617 diff --git a/public/sclc_uc_2024/meta_clinical_patient.txt b/public/sclc_uc_2024/meta_clinical_patient.txt new file mode 100644 index 000000000..98970b1da --- /dev/null +++ b/public/sclc_uc_2024/meta_clinical_patient.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: sclc_uc_2024 +data_filename: data_clinical_patient.txt +genetic_alteration_type: CLINICAL +datatype: PATIENT_ATTRIBUTES diff --git a/public/sclc_uc_2024/meta_clinical_sample.txt b/public/sclc_uc_2024/meta_clinical_sample.txt new file mode 100644 index 000000000..5b2a84aff --- /dev/null +++ b/public/sclc_uc_2024/meta_clinical_sample.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: sclc_uc_2024 +data_filename: data_clinical_sample.txt +genetic_alteration_type: CLINICAL +datatype: SAMPLE_ATTRIBUTES diff --git a/public/sclc_uc_2024/meta_gene_panel_matrix.txt b/public/sclc_uc_2024/meta_gene_panel_matrix.txt new file mode 100755 index 000000000..7a5e93d5e --- /dev/null +++ b/public/sclc_uc_2024/meta_gene_panel_matrix.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: sclc_uc_2024 +genetic_alteration_type: GENE_PANEL_MATRIX +datatype: GENE_PANEL_MATRIX +data_filename: data_gene_panel_matrix.txt diff --git a/public/sclc_uc_2024/meta_gistic_genes_amp.txt b/public/sclc_uc_2024/meta_gistic_genes_amp.txt new file mode 100644 index 000000000..ca3da478e --- /dev/null +++ b/public/sclc_uc_2024/meta_gistic_genes_amp.txt @@ -0,0 +1,9 @@ +cancer_study_identifier: sclc_uc_2024 +data_filename: data_gistic_genes_amp.txt +stable_id: gistic_genes_amp +genetic_alteration_type: GISTIC_GENES_AMP +datatype: Q-VALUE +show_profile_in_analysis_tab: FALSE +profile_name: Putative copy-number alterations (amplifications) from CGARS +profile_description: Putative copy-number amplifications determined using CGARS. +reference_genome_id: hg19 diff --git a/public/sclc_uc_2024/meta_gistic_genes_del.txt b/public/sclc_uc_2024/meta_gistic_genes_del.txt new file mode 100644 index 000000000..40a8884c8 --- /dev/null +++ b/public/sclc_uc_2024/meta_gistic_genes_del.txt @@ -0,0 +1,9 @@ +cancer_study_identifier: sclc_uc_2024 +data_filename: data_gistic_genes_del.txt +stable_id: gistic_genes_del +genetic_alteration_type: GISTIC_GENES_DEL +datatype: Q-VALUE +show_profile_in_analysis_tab: FALSE +profile_name: Putative copy-number alterations (deletions) from CGARS +profile_description: Putative copy-number deletions determined using CGARS. +reference_genome_id: hg19 diff --git a/public/sclc_uc_2024/meta_mrna_seq_fpkm.txt b/public/sclc_uc_2024/meta_mrna_seq_fpkm.txt new file mode 100644 index 000000000..eaf4cd4a3 --- /dev/null +++ b/public/sclc_uc_2024/meta_mrna_seq_fpkm.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: sclc_uc_2024 +data_filename: data_mrna_seq_fpkm.txt +stable_id: mrna_seq_fpkm +genetic_alteration_type: MRNA_EXPRESSION +datatype: CONTINUOUS +profile_name: mRNA expression (FPKM) +profile_description: mRNA expression from capture (RNA Seq FPKM) +show_profile_in_analysis_tab: false diff --git a/public/sclc_uc_2024/meta_mutations.txt b/public/sclc_uc_2024/meta_mutations.txt new file mode 100644 index 000000000..146bf77c3 --- /dev/null +++ b/public/sclc_uc_2024/meta_mutations.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: sclc_uc_2024 +data_filename: data_mutations.txt +stable_id: mutations +genetic_alteration_type: MUTATION_EXTENDED +datatype: MAF +show_profile_in_analysis_tab: TRUE +profile_name: Mutations +profile_description: Mutation data from whole genome and whole exome sequencing. diff --git a/public/sclc_uc_2024/meta_study.txt b/public/sclc_uc_2024/meta_study.txt new file mode 100644 index 000000000..17bfd6dfe --- /dev/null +++ b/public/sclc_uc_2024/meta_study.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: sclc_uc_2024 +type_of_cancer: lung +name: Small Cell Lung Cancer (UC, Nature 2024) +description: Whole genome and whole exome sequencing of 160 small cell lung cancer tumors and their matched normals from 65 patients. +pmid: 38480884 +citation: George, Julie et al. Nature 2024 diff --git a/public/sclc_uc_2024/readme.md b/public/sclc_uc_2024/readme.md new file mode 100644 index 000000000..656ad05f4 --- /dev/null +++ b/public/sclc_uc_2024/readme.md @@ -0,0 +1,19 @@ +Data Transformation and Curation + +Clinical Data +Supplementary tables 1, 2, and 4 + +Mutation Data +Supplementary table 6: somatic mutation calls + +Mutational Signatures +Supplementary table 5: mutational signature contribution presented as percentage, transformed to values 0 ≥ x ≥ 1 + +Expression Data +Supplementary table 10: data is FPKM + +GISTIC Data +Supplementary table 9: CNA data (determined with CGARS - Ref. 54) transformed to data_gistic_genes_amp and data_gistic_genes_del + +Structural Variants +Supplementary table 7: showing genomic rearrangements \ No newline at end of file diff --git a/public/sft_sysucc_2023/README.md b/public/sft_sysucc_2023/README.md new file mode 100644 index 000000000..b750c0b74 --- /dev/null +++ b/public/sft_sysucc_2023/README.md @@ -0,0 +1,17 @@ +Study Curation and Transformation README +Curator name: Min-Ju Chien, Georgetown University 2024 + +General information +Reference publication: 37980418 +Reference genome used: GRCh37 + +Clinical Data +Supplementary file: Supplementary Data 1 +Supplementary table title: Detailed information for each SFT patient in SYSUCC cohort and three validation cohorts +Sample size: 131 patients from the SYSUCC discovery cohort + +Mutation Data +Supplementary file: Supplementary Data 2 +Supplementary table title: Detailed information on altered genes detected by NGS in 131 SFTs in SYSUCC cohort +Annotation using Genome Nexus +Reference genome: GRCh37 \ No newline at end of file diff --git a/public/sft_sysucc_2023/case_lists/cases_all.txt b/public/sft_sysucc_2023/case_lists/cases_all.txt new file mode 100644 index 000000000..61fd132ad --- /dev/null +++ b/public/sft_sysucc_2023/case_lists/cases_all.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: sft_sysucc_2023 +stable_id: sft_sysucc_2023_all +case_list_name: All samples +case_list_description: All samples (131 samples) +case_list_category: all_cases_in_study +case_list_ids: SFT-131 SFT-130 SFT-68 SFT-69 SFT-62 SFT-63 SFT-60 SFT-61 SFT-66 SFT-67 SFT-64 SFT-65 SFT-79 SFT-78 SFT-71 SFT-70 SFT-73 SFT-72 SFT-75 SFT-74 SFT-77 SFT-76 SFT-44 SFT-45 SFT-46 SFT-47 SFT-40 SFT-41 SFT-42 SFT-43 SFT-108 SFT-48 SFT-49 SFT-109 SFT-126 SFT-127 SFT-124 SFT-125 SFT-122 SFT-123 SFT-120 SFT-121 SFT-128 SFT-129 SFT-53 SFT-52 SFT-51 SFT-50 SFT-57 SFT-56 SFT-55 SFT-54 SFT-59 SFT-58 SFT-26 SFT-27 SFT-24 SFT-25 SFT-22 SFT-23 SFT-20 SFT-21 SFT-103 SFT-28 SFT-29 SFT-102 SFT-35 SFT-34 SFT-37 SFT-36 SFT-31 SFT-30 SFT-33 SFT-32 SFT-39 SFT-38 SFT-119 SFT-118 SFT-117 SFT-116 SFT-115 SFT-114 SFT-113 SFT-112 SFT-111 SFT-110 SFT-88 SFT-89 SFT-80 SFT-81 SFT-82 SFT-83 SFT-84 SFT-85 SFT-86 SFT-87 SFT-7 SFT-6 SFT-5 SFT-4 SFT-3 SFT-2 SFT-1 SFT-9 SFT-8 SFT-97 SFT-96 SFT-95 SFT-94 SFT-93 SFT-92 SFT-91 SFT-90 SFT-104 SFT-105 SFT-106 SFT-107 SFT-100 SFT-101 SFT-99 SFT-98 SFT-19 SFT-18 SFT-17 SFT-16 SFT-15 SFT-14 SFT-13 SFT-12 SFT-11 SFT-10 \ No newline at end of file diff --git a/public/sft_sysucc_2023/case_lists/cases_sequenced.txt b/public/sft_sysucc_2023/case_lists/cases_sequenced.txt new file mode 100644 index 000000000..c990e2d04 --- /dev/null +++ b/public/sft_sysucc_2023/case_lists/cases_sequenced.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: sft_sysucc_2023 +stable_id: sft_sysucc_2023_sequenced +case_list_name: Samples with mutation data +case_list_description: Samples with mutation data (131 samples) +case_list_category: all_cases_with_mutation_data +case_list_ids: SFT-131 SFT-130 SFT-68 SFT-69 SFT-62 SFT-63 SFT-60 SFT-61 SFT-66 SFT-67 SFT-64 SFT-65 SFT-79 SFT-78 SFT-71 SFT-70 SFT-73 SFT-72 SFT-75 SFT-74 SFT-77 SFT-76 SFT-98 SFT-99 SFT-44 SFT-45 SFT-46 SFT-47 SFT-40 SFT-41 SFT-42 SFT-43 SFT-93 SFT-48 SFT-49 SFT-92 SFT-126 SFT-127 SFT-124 SFT-125 SFT-122 SFT-123 SFT-120 SFT-121 SFT-128 SFT-129 SFT-53 SFT-52 SFT-51 SFT-50 SFT-57 SFT-56 SFT-55 SFT-54 SFT-59 SFT-58 SFT-26 SFT-27 SFT-24 SFT-25 SFT-22 SFT-23 SFT-20 SFT-21 SFT-28 SFT-29 SFT-35 SFT-34 SFT-37 SFT-36 SFT-31 SFT-30 SFT-33 SFT-32 SFT-39 SFT-38 SFT-119 SFT-118 SFT-117 SFT-116 SFT-115 SFT-114 SFT-113 SFT-112 SFT-111 SFT-110 SFT-88 SFT-89 SFT-80 SFT-81 SFT-82 SFT-83 SFT-84 SFT-85 SFT-86 SFT-87 SFT-7 SFT-6 SFT-5 SFT-4 SFT-3 SFT-2 SFT-1 SFT-9 SFT-8 SFT-97 SFT-96 SFT-95 SFT-94 SFT-108 SFT-109 SFT-91 SFT-90 SFT-104 SFT-105 SFT-106 SFT-107 SFT-100 SFT-101 SFT-102 SFT-103 SFT-19 SFT-18 SFT-17 SFT-16 SFT-15 SFT-14 SFT-13 SFT-12 SFT-11 SFT-10 \ No newline at end of file diff --git a/public/sft_sysucc_2023/data_clinical_patient.txt b/public/sft_sysucc_2023/data_clinical_patient.txt new file mode 100644 index 000000000..833920ba4 --- /dev/null +++ b/public/sft_sysucc_2023/data_clinical_patient.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:f4be7333915f791431cc619a15d27237373bc6a4c1aad87e8b70a54cb70bbf58 +size 34933 diff --git a/public/sft_sysucc_2023/data_clinical_sample.txt b/public/sft_sysucc_2023/data_clinical_sample.txt new file mode 100644 index 000000000..6ff489e42 --- /dev/null +++ b/public/sft_sysucc_2023/data_clinical_sample.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:3ca916f900a317398195fdf6ce396df80bc6faf0f80d8700c515671546ef8108 +size 20407 diff --git a/public/sft_sysucc_2023/data_mutations.txt b/public/sft_sysucc_2023/data_mutations.txt new file mode 100644 index 000000000..8e517e17e --- /dev/null +++ b/public/sft_sysucc_2023/data_mutations.txt @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:aaaaf3be98e68d54df103772e50cc83a2eaf65925fcfa41f6b9537f194f95d38 +size 306472 diff --git a/public/sft_sysucc_2023/meta_clinical_patient.txt b/public/sft_sysucc_2023/meta_clinical_patient.txt new file mode 100644 index 000000000..66287d7c2 --- /dev/null +++ b/public/sft_sysucc_2023/meta_clinical_patient.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: sft_sysucc_2023 +data_filename: data_clinical_patient.txt +genetic_alteration_type: CLINICAL +datatype: PATIENT_ATTRIBUTES diff --git a/public/sft_sysucc_2023/meta_clinical_sample.txt b/public/sft_sysucc_2023/meta_clinical_sample.txt new file mode 100644 index 000000000..f94b088bf --- /dev/null +++ b/public/sft_sysucc_2023/meta_clinical_sample.txt @@ -0,0 +1,4 @@ +cancer_study_identifier: sft_sysucc_2023 +data_filename: data_clinical_sample.txt +genetic_alteration_type: CLINICAL +datatype: SAMPLE_ATTRIBUTES diff --git a/public/sft_sysucc_2023/meta_mutations.txt b/public/sft_sysucc_2023/meta_mutations.txt new file mode 100644 index 000000000..221489dea --- /dev/null +++ b/public/sft_sysucc_2023/meta_mutations.txt @@ -0,0 +1,8 @@ +cancer_study_identifier: sft_sysucc_2023 +genetic_alteration_type: MUTATION_EXTENDED +datatype: MAF +stable_id: mutations +show_profile_in_analysis_tab: true +profile_description: Somatic mutation data from targeted sequencing of 131 solitary fibrous tumor cancer samples +profile_name: Mutations +data_filename: data_mutations.txt \ No newline at end of file diff --git a/public/sft_sysucc_2023/meta_study.txt b/public/sft_sysucc_2023/meta_study.txt new file mode 100644 index 000000000..0b6aed478 --- /dev/null +++ b/public/sft_sysucc_2023/meta_study.txt @@ -0,0 +1,6 @@ +cancer_study_identifier: sft_sysucc_2023 +type_of_cancer: mixed +name: Solitary Fibrous Tumors (SYSUCC, Nat Commun 2023) +description: Targeted sequencing of 131 solitary fibrous tumor samples constituting the SYSUCC discovery cohort. +pmid: 37980418 +citation: Zhang et al. Nat Commun 2023 \ No newline at end of file