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Merged
dragon-ai-agent merged 3 commits into from
Dec 15, 2025
Merged

Add new value sets and improve existing enums #40

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f4202bd
Add new value sets and improve existing enums
dragon-ai-agent Dec 15, 2025
73816ca
Update src/valuesets/utils/query_describer.py
dragon-ai-agent Dec 15, 2025
6f1052d
Update scripts/enrich_enum_docs.py
dragon-ai-agent Dec 15, 2025
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16 changes: 15 additions & 1 deletion cache/chebi/terms.csv
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Expand Up @@ -223,4 +223,18 @@ CHEBI:37739,glycerophospholipid,2025-10-19T08:26:29.438101
CHEBI:26739,sphingolipid,2025-10-19T08:26:29.438967
CHEBI:35341,steroid,2025-10-19T08:26:29.439762
CHEBI:24913,isoprenoid,2025-10-19T08:26:29.440626
CHEBI:46662,mineral,2025-11-03T14:57:37.820608
CHEBI:46662,mineral,2025-11-03T14:57:37.820608CHEBI:26188,polyketide,2025-12-14T23:20:36.447071
CHEBI:35186,terpene,2025-12-14T23:20:36.448502
CHEBI:18154,polysaccharide,2025-12-14T23:20:36.449560
CHEBI:166975,soybean oil,2025-12-14T23:20:37.579037
CHEBI:16236,ethanol,2025-12-14T23:20:37.579948
CHEBI:28885,butan-1-ol,2025-12-14T23:20:37.586396
CHEBI:28887,dimethyl ether,2025-12-14T23:20:37.586758
CHEBI:33492,radon-222 atom,2025-12-14T23:20:37.644846
CHEBI:80504,Radium-226,2025-12-14T23:20:37.645590
CHEBI:80505,Radium-228,2025-12-14T23:20:37.645978
CHEBI:196959,caesium-137,2025-12-14T23:20:37.646576
CHEBI:29238,tritium atom,2025-12-14T23:20:37.648492
CHEBI:36927,carbon-14 atom,2025-12-14T23:20:37.649036
CHEBI:37340,polonium-210 atom,2025-12-14T23:20:37.649555
CHEBI:26188,polyketide,2025-12-14T23:34:13.539907
10 changes: 10 additions & 0 deletions cache/chmo/terms.csv
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Expand Up @@ -40,3 +40,13 @@ CHMO:0001472,spin coating,2025-10-19T12:01:56.208781
CHMO:0001471,dip coating,2025-10-19T12:01:56.208968
CHMO:0001341,molecular beam epitaxy,2025-10-19T12:01:56.209164
CHMO:0001868,spin echo pulse sequence,2025-10-19T12:01:56.343815
CHMO:0000175,time-resolved resonance Rayleigh scattering,2025-12-14T23:20:36.853761
CHMO:0000184,small-angle neutron scattering,2025-12-14T23:20:36.854078
CHMO:0000213,optical coherence-domain reflectometry,2025-12-14T23:20:36.854434
CHMO:0001810,synchrotron,2025-12-14T23:20:36.858087
CHMO:0001107,positive electrospray ionisation mass spectrometry,2025-12-14T23:20:36.858565
CHMO:0002837,nanoparticle synthesis,2025-12-14T23:20:36.859023
CHMO:0002171,phase atomic force micrograph,2025-12-14T23:20:36.859470
CHMO:0002836,Stöber process,2025-12-14T23:20:36.859713
CHMO:0001069,far-infrared magnetic resonance spectroscopy,2025-12-14T23:20:36.860134
CHMO:0001501,gasification,2025-12-14T23:20:37.585587
8 changes: 8 additions & 0 deletions cache/edam/terms.csv
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Expand Up @@ -60,3 +60,11 @@ EDAM:format_3981,TAR format,2025-10-31T09:14:52.382143
EDAM:format_3989,GZIP format,2025-10-31T09:14:52.382723
EDAM:format_3990,AVI,2025-10-31T09:14:52.383257
EDAM:data_2968,Image,2025-10-31T09:14:52.384010
EDAM:3842,,2025-12-14T23:20:36.860492
EDAM:3591,,2025-12-14T23:20:36.861095
EDAM:3590,,2025-12-14T23:20:36.861441
EDAM:3906,,2025-12-14T23:20:36.861669
EDAM:1476,,2025-12-14T23:20:36.861877
EDAM:1477,,2025-12-14T23:20:36.862076
EDAM:3816,,2025-12-14T23:20:36.862266
EDAM:3874,,2025-12-14T23:20:36.862569
30 changes: 30 additions & 0 deletions cache/envo/terms.csv
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Expand Up @@ -57,3 +57,33 @@ ENVO:00005767,manured soil,2025-11-25T07:59:01.136442
ENVO:00002273,fluvisol,2025-11-25T07:59:01.136678
ENVO:00000873,freshwater biome,2025-11-25T07:59:01.137110
ENVO:00002030,aquatic biome,2025-11-25T08:16:30.607490
ENVO:01000787,wildfire,2025-12-14T23:20:37.634631
ENVO:01000791,forest fire,2025-12-14T23:20:37.635079
ENVO:01001296,tropical storm,2025-12-14T23:20:37.635600
ENVO:01001482,tornado,2025-12-14T23:20:37.636107
ENVO:01000710,flood,2025-12-14T23:20:37.636477
ENVO:01000712,riverine flood,2025-12-14T23:20:37.636683
ENVO:01000711,coastal flood,2025-12-14T23:20:37.636883
ENVO:01000713,flash flood,2025-12-14T23:20:37.637077
ENVO:1000745,drought,2025-12-14T23:20:37.637481
ENVO:01000903,blizzard,2025-12-14T23:20:37.637917
ENVO:01001294,convective storm,2025-12-14T23:20:37.638115
ENVO:01000714,storm surge,2025-12-14T23:20:37.638322
ENVO:01001026,electromagnetic radiation,2025-12-15T09:06:39.332556
ENVO:21001219,ionizing radiation,2025-12-15T09:06:39.333380
ENVO:21001218,gamma-ray radiation,2025-12-15T09:06:39.333783
ENVO:21001217,X-ray radiation,2025-12-15T09:06:39.334097
ENVO:21001216,ultraviolet radiation,2025-12-15T09:06:39.334365
ENVO:21001215,visible spectrum radiation,2025-12-15T09:06:39.334694
ENVO:21001214,infrared radiation,2025-12-15T09:06:39.334982
ENVO:21001212,microwave radiation,2025-12-15T09:06:39.335229
ENVO:21001213,radio wave radiation,2025-12-15T09:06:39.335475
ENVO:01001864,photosynthetically active radiation,2025-12-15T09:06:39.335880
ENVO:01001861,shortwave radiation,2025-12-15T09:06:39.336310
ENVO:01001857,outgoing longwave radiation,2025-12-15T09:06:39.336543
ENVO:03500014,near-infrared radiation,2025-12-15T09:06:39.337058
ENVO:03500013,mid-infrared radiation,2025-12-15T09:06:39.337390
ENVO:03500015,far-infrared radiation,2025-12-15T09:06:39.337877
ENVO:01001027,acoustic radiation,2025-12-15T09:06:39.338186
ENVO:03500012,ultrasound radiation,2025-12-15T09:06:39.338459
ENVO:01001566,infrasound,2025-12-15T09:06:39.339064
3 changes: 3 additions & 0 deletions cache/go/terms.csv
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Expand Up @@ -46,3 +46,6 @@ GO:0008150,biological_process,2025-10-19T07:20:41.341696
GO:0005575,cellular_component,2025-10-19T07:20:41.342186
GO:0007127,meiosis I,2025-10-19T07:42:21.101984
GO:0043065,positive regulation of apoptotic process,2025-10-19T07:42:21.110811
GO:0032991,protein-containing complex,2025-12-14T23:20:36.849410
GO:0043226,organelle,2025-12-14T23:20:36.850847
GO:0006508,proteolysis,2025-12-14T23:20:36.870813
16 changes: 16 additions & 0 deletions cache/hp/terms.csv
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Expand Up @@ -24,3 +24,19 @@ HP:0003584,Late onset,2025-10-19T07:20:45.390622
HP:0012825,Mild,2025-10-19T07:20:50.622288
HP:0012826,Moderate,2025-10-19T07:20:50.622619
HP:0012828,Severe,2025-10-19T07:20:50.622889
HP:0000006,Autosomal dominant inheritance,2025-12-14T23:20:37.162668
HP:0000007,Autosomal recessive inheritance,2025-12-14T23:20:37.163091
HP:0001417,X-linked inheritance,2025-12-14T23:20:37.163644
HP:0001423,X-linked dominant inheritance,2025-12-14T23:20:37.165402
HP:0001419,X-linked recessive inheritance,2025-12-14T23:20:37.165805
HP:0001450,Y-linked inheritance,2025-12-14T23:20:37.166312
HP:0001427,Mitochondrial inheritance,2025-12-14T23:20:37.166715
HP:0034345,Mendelian inheritance,2025-12-14T23:20:37.167224
HP:0001426,Non-Mendelian inheritance,2025-12-14T23:20:37.167456
HP:0010984,Digenic inheritance,2025-12-14T23:20:37.168067
HP:0010983,Oligogenic inheritance,2025-12-14T23:20:37.168283
HP:0010982,Polygenic inheritance,2025-12-14T23:20:37.168480
HP:0032113,Semidominant inheritance,2025-12-14T23:20:37.169244
HP:0034339,Pseudoautosomal inheritance,2025-12-14T23:20:37.169578
HP:0034340,Pseudoautosomal dominant inheritance,2025-12-14T23:20:37.169815
HP:0034341,Pseudoautosomal recessive inheritance,2025-12-14T23:20:37.170032
1 change: 1 addition & 0 deletions cache/mi/terms.csv
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Expand Up @@ -69,3 +69,4 @@ MI:0318,nucleic acid,2025-10-19T08:27:58.628081
MI:0621,author-confidence,2025-10-19T08:27:58.628346
MI:0506,over expressed level,2025-10-19T08:27:58.628577
MI:0788,knock out,2025-10-19T08:27:58.628800
MI:2338,electron tomography,2025-12-14T23:20:36.853182
93 changes: 93 additions & 0 deletions cache/ncit/terms.csv
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Expand Up @@ -215,3 +215,96 @@ NCIT:C12345,Test Label,2025-10-20T10:35:58.258441
NCIT:C43377,Microplate,2025-10-29T20:43:07.410222
NCIT:C128793,Microplate Well,2025-10-29T20:43:07.418438
NCIT:C103215,Tetrahedral Molecular Geometry,2025-11-07T16:28:22.748298
NCIT:C813,Messenger RNA,2025-12-14T23:20:36.848317
NCIT:C16837,Membrane Protein,2025-12-14T23:20:36.850282
NCIT:C12508,Cell,2025-12-14T23:20:36.851774
NCIT:C12801,Tissue,2025-12-14T23:20:36.852626
NCIT:C103211,Square Planar 1 Molecular Geometry,2025-12-14T23:20:36.863595
NCIT:C103216,Octahedral 12 Molecular Geometry,2025-12-14T23:20:36.864051
NCIT:C29776,Strontium Sr-90,2025-12-14T23:20:37.647267
NCIT:C1639,Iodine I-131,2025-12-14T23:20:37.647796
NCIT:C29774,Plutonium-239,2025-12-14T23:20:37.648085
NCIT:C2916,Carcinoma,2025-12-14T23:20:37.936605
NCIT:C2852,Adenocarcinoma,2025-12-14T23:20:37.964061
NCIT:C2929,Squamous Cell Carcinoma,2025-12-14T23:20:37.965003
NCIT:C2930,Transitional Cell Carcinoma,2025-12-14T23:20:37.965886
NCIT:C3915,Small Cell Neuroendocrine Carcinoma,2025-12-14T23:20:37.966981
NCIT:C9118,Sarcoma,2025-12-14T23:20:37.967852
NCIT:C9145,Osteosarcoma,2025-12-14T23:20:37.968889
NCIT:C2946,Chondrosarcoma,2025-12-14T23:20:37.969642
NCIT:C3194,Liposarcoma,2025-12-14T23:20:37.970363
NCIT:C3158,Leiomyosarcoma,2025-12-14T23:20:37.970945
NCIT:C3359,Rhabdomyosarcoma,2025-12-14T23:20:37.972416
NCIT:C3208,Lymphoma,2025-12-14T23:20:37.975383
NCIT:C9357,Hodgkin Lymphoma,2025-12-14T23:20:37.976398
NCIT:C3211,Non-Hodgkin Lymphoma,2025-12-14T23:20:37.977051
NCIT:C8851,Diffuse Large B-Cell Lymphoma,2025-12-14T23:20:37.977832
NCIT:C3161,Leukemia,2025-12-14T23:20:37.978383
NCIT:C3167,Acute Lymphoblastic Leukemia,2025-12-14T23:20:37.978993
NCIT:C3171,Acute Myeloid Leukemia,2025-12-14T23:20:37.979437
NCIT:C3163,Chronic Lymphocytic Leukemia,2025-12-14T23:20:37.979816
NCIT:C3174,"Chronic Myeloid Leukemia, BCR-ABL1 Positive",2025-12-14T23:20:37.980259
NCIT:C3224,Melanoma,2025-12-14T23:20:37.980752
NCIT:C3234,Mesothelioma,2025-12-14T23:20:37.981325
NCIT:C3708,Germ Cell Tumor,2025-12-14T23:20:37.982000
NCIT:C3677,Benign Neoplasm,2025-12-14T23:20:37.982570
NCIT:C2917,Carcinoma In Situ,2025-12-14T23:20:37.982915
NCIT:C6807,Benign External Ear Neoplasm,2025-12-14T23:20:37.990406
NCIT:C3698,Choroid Plexus Papilloma,2025-12-14T23:20:37.991062
NCIT:C6286,Childhood Cerebellar Astrocytoma,2025-12-14T23:20:37.991947
NCIT:C121624,Agonal Respiration,2025-12-14T23:20:37.992695
NCIT:C2998,Dyspnea,2025-12-14T23:20:37.993344
NCIT:C3017,Ependymoma,2025-12-14T23:20:37.993942
NCIT:C6927,Malignant Epithelioma,2025-12-14T23:20:37.994468
NCIT:C129355,Chromothripsis,2025-12-14T23:20:37.995194
NCIT:C129354,ZFTA/RELA Fusion Protein,2025-12-14T23:20:37.995524
NCIT:C3222,Medulloblastoma,2025-12-14T23:20:37.995973
NCIT:C6774,Recurrent Childhood Medulloblastoma,2025-12-14T23:20:37.996424
NCIT:C3059,Glioma,2025-12-14T23:20:37.996978
NCIT:C2907,Brain Neoplasm,2025-12-14T23:20:37.997568
NCIT:C3138,Inflammatory Bowel Disease,2025-12-14T23:20:37.997972
NCIT:C27134,Hematopoietic and Lymphoid Cell Neoplasm,2025-12-14T23:20:37.998528
NCIT:C3270,Neuroblastoma,2025-12-14T23:20:37.999107
NCIT:C4817,Ewing Sarcoma,2025-12-14T23:20:37.999750
NCIT:C3399,Swelling,2025-12-14T23:20:38.000308
NCIT:C3769,Endometrioid Adenocarcinoma,2025-12-14T23:20:38.000854
NCIT:C7548,Malignant Kidney Neoplasm,2025-12-14T23:20:38.001508
NCIT:C7541,Retinoblastoma,2025-12-14T23:20:38.001951
NCIT:C3010,Endocrine Neoplasm,2025-12-14T23:20:38.002441
NCIT:C9107,Childhood Solid Neoplasm,2025-12-14T23:20:38.004683
NCIT:C7058,Melanocytic Neoplasm,2025-12-14T23:20:38.015168
NCIT:C7927,Liver Carcinoma,2025-12-14T23:20:38.016161
NCIT:C4882,Myoma,2025-12-14T23:20:38.016873
NCIT:C9306,Soft Tissue Sarcoma,2025-12-14T23:20:38.017523
NCIT:C3709,Epithelial Neoplasm,2025-12-14T23:20:38.018004
NCIT:C3262,Neoplasm,2025-12-14T23:20:38.018579
NCIT:C4345,Myeloproliferative Neoplasm,2025-12-14T23:20:38.019389
NCIT:C3247,Myelodysplastic Syndrome,2025-12-14T23:20:38.019892
NCIT:C8150,Ann Arbor Stage IV Adult Immunoblastic Lymphoma,2025-12-14T23:20:38.020564
NCIT:C60781,Astrocytoma,2025-12-14T23:20:38.021312
NCIT:C4969,Therapy-Related Malignant Neoplasm,2025-12-14T23:20:38.021989
NCIT:C3267,Wilms Tumor,2025-12-14T23:20:38.022498
NCIT:C9385,Renal Cell Carcinoma,2025-12-14T23:20:38.023096
NCIT:C3728,Hepatoblastoma,2025-12-14T23:20:38.023771
NCIT:C3099,Hepatocellular Carcinoma,2025-12-14T23:20:38.024284
NCIT:C3043,Fibrosarcoma,2025-12-14T23:20:38.025091
NCIT:C9087,Kaposi Sarcoma,2025-12-14T23:20:38.025821
NCIT:C6545,Childhood Testicular Embryonal Carcinoma,2025-12-14T23:20:38.026698
NCIT:C9325,Adrenal Cortical Carcinoma,2025-12-14T23:20:38.027456
NCIT:C7510,Malignant Thyroid Gland Neoplasm,2025-12-14T23:20:38.028194
NCIT:C3871,Nasopharyngeal Carcinoma,2025-12-14T23:20:38.028946
NCIT:C3372,Skin Neoplasm,2025-12-14T23:20:38.029462
NCIT:C133427,International Neuroblastoma Risk Group Staging System,2025-12-14T23:20:38.036469
NCIT:C133428,INRG Stage L1,2025-12-14T23:20:38.036965
NCIT:C133429,INRG Stage L2,2025-12-14T23:20:38.037367
NCIT:C133430,INRG Stage M,2025-12-14T23:20:38.037748
NCIT:C6639,Stage 2 Neuroblastoma,2025-12-14T23:20:38.038421
NCIT:C6640,Stage 3 Neuroblastoma,2025-12-14T23:20:38.039013
NCIT:C6641,Stage 4 Neuroblastoma,2025-12-14T23:20:38.039457
NCIT:C6642,Malignant Mediastinal Soft Tissue Neoplasm,2025-12-14T23:20:38.040047
NCIT:C6643,Mediastinal Schwannoma,2025-12-14T23:20:38.040554
NCIT:C6644,Pleural Lipoma,2025-12-14T23:20:38.041113
NCIT:C103236,Fetal Neurodevelopmental Disorder,2025-12-14T23:20:38.041632
NCIT:C103237,Decant,2025-12-14T23:20:38.042003
NCIT:C103238,Antecubital Fossa,2025-12-14T23:20:38.042387
NCIT:C103239,Total Proctocolectomy,2025-12-14T23:20:38.042749
2 changes: 2 additions & 0 deletions cache/ror/terms.csv
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Expand Up @@ -55,3 +55,5 @@ ROR:04h4z8k05,UNESCO,2025-10-31T16:48:03.458793
ROR:00gtfax65,International Atomic Energy Agency,2025-10-31T16:48:03.640425
ROR:011pjwf87,World Meteorological Organization,2025-10-31T16:48:03.836400
ROR:015z29x25,United Nations Environment Programme,2025-10-31T16:48:04.024396
ROR:02catss52,European Bioinformatics Institute,2025-12-14T23:20:38.605985
ROR:02meqm098,National Center for Biotechnology Information,2025-12-14T23:20:38.792977
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