Releases: SACGF/cdot
Releases · SACGF/cdot
data_v0.2.32
cdot-0.2.32.ensembl.GRCh37.json.gz
Method: Merge historical
Urls:
- https://ftp.ensembl.org/pub/grch37/release-87/gtf/homo_sapiens/Homo_sapiens.GRCh37.87.gtf.gz: 196501
cdot-0.2.32.Homo_sapiens_GRCh37_Ensembl_87.gtf.json.gz
Method: Single GFF3 file
Urls:
- https://ftp.ensembl.org/pub/grch37/release-87/gtf/homo_sapiens/Homo_sapiens.GRCh37.87.gtf.gz: 196501
cdot-0.2.32.ensembl.GRCh38.json.gz
Method: Merge historical
Urls:
- https://ftp.ensembl.org/pub/release-115/gtf/homo_sapiens/Homo_sapiens.GRCh38.115.gtf.gz: 509650
- https://ftp.ensembl.org/pub/release-112/gtf/homo_sapiens/Homo_sapiens.GRCh38.112.gtf.gz: 15424
- https://ftp.ensembl.org/pub/release-95/gtf/homo_sapiens/Homo_sapiens.GRCh38.95.gtf.gz: 11320
- https://ftp.ensembl.org/pub/release-106/gtf/homo_sapiens/Homo_sapiens.GRCh38.106.gtf.gz: 5036
- https://ftp.ensembl.org/pub/release-104/gtf/homo_sapiens/Homo_sapiens.GRCh38.104.gtf.gz: 4367
- https://ftp.ensembl.org/pub/release-84/gtf/homo_sapiens/Homo_sapiens.GRCh38.84.gtf.gz: 4226
- https://ftp.ensembl.org/pub/release-96/gtf/homo_sapiens/Homo_sapiens.GRCh38.96.gtf.gz: 3535
- https://ftp.ensembl.org/pub/release-97/gtf/homo_sapiens/Homo_sapiens.GRCh38.97.gtf.gz: 2499
- https://ftp.ensembl.org/pub/release-100/gtf/homo_sapiens/Homo_sapiens.GRCh38.100.gtf.gz: 1862
- https://ftp.ensembl.org/pub/release-103/gtf/homo_sapiens/Homo_sapiens.GRCh38.103.gtf.gz: 1832
- https://ftp.ensembl.org/pub/release-101/gtf/homo_sapiens/Homo_sapiens.GRCh38.101.gtf.gz: 1830
- https://ftp.ensembl.org/pub/release-91/gtf/homo_sapiens/Homo_sapiens.GRCh38.91.gtf.gz: 1803
- https://ftp.ensembl.org/pub/release-102/gtf/homo_sapiens/Homo_sapiens.GRCh38.102.gtf.gz: 1462
- https://ftp.ensembl.org/pub/release-99/gtf/homo_sapiens/Homo_sapiens.GRCh38.99.gtf.gz: 1435
- https://ftp.ensembl.org/pub/release-87/gtf/homo_sapiens/Homo_sapiens.GRCh38.87.gtf.gz: 1077
- https://ftp.ensembl.org/pub/release-93/gtf/homo_sapiens/Homo_sapiens.GRCh38.93.gtf.gz: 947
- https://ftp.ensembl.org/pub/release-109/gtf/homo_sapiens/Homo_sapiens.GRCh38.109.gtf.gz: 907
- https://ftp.ensembl.org/pub/release-98/gtf/homo_sapiens/Homo_sapiens.GRCh38.98.gtf.gz: 861
- https://ftp.ensembl.org/pub/release-82/gtf/homo_sapiens/Homo_sapiens.GRCh38.82.gtf.gz: 793
- https://ftp.ensembl.org/pub/release-105/gtf/homo_sapiens/Homo_sapiens.GRCh38.105.gtf.gz: 708
- https://ftp.ensembl.org/pub/release-111/gtf/homo_sapiens/Homo_sapiens.GRCh38.111.gtf.gz: 633
- https://ftp.ensembl.org/pub/release-114/gtf/homo_sapiens/Homo_sapiens.GRCh38.114.gtf.gz: 602
- https://ftp.ensembl.org/pub/release-107/gtf/homo_sapiens/Homo_sapiens.GRCh38.107.gtf.gz: 526
- https://ftp.ensembl.org/pub/release-89/gtf/homo_sapiens/Homo_sapiens.GRCh38.89.gtf.gz: 384
- https://ftp.ensembl.org/pub/release-108/gtf/homo_sapiens/Homo_sapiens.GRCh38.108.gtf.gz: 337
- https://ftp.ensembl.org/pub/release-113/gtf/homo_sapiens/Homo_sapiens.GRCh38.113.gtf.gz: 268
- https://ftp.ensembl.org/pub/release-110/gtf/homo_sapiens/Homo_sapiens.GRCh38.110.gtf.gz: 260
cdot-0.2.32.Homo_sapiens_GRCh38_Ensembl_112.gtf.json.gz
Method: Single GFF3 file
Urls:
cdot-0.2.32.Homo_sapiens_GRCh38_Ensembl_113.gtf.json.gz
Method: Single GFF3 file
Urls:
cdot-0.2.32.Homo_sapiens_GRCh38_Ensembl_114.gtf.json.gz
Method: Single GFF3 file
Urls:
cdot-0.2.32.Homo_sapiens_GRCh38_Ensembl_115.gtf.json.gz
Method: Single GFF3 file
Urls:
cdot-0.2.32.ensembl.T2T-CHM13v2.0.json.gz
Method: Merge historical
Urls:
- https://ftp.ensembl.org/pub/rapid-release/species/Homo_sapiens/GCA_009914755.4/ensembl/geneset/2022_07/Homo_sapiens-GCA_009914755.4-2022_07-genes.gtf.gz: 236651
- https://ftp.ensembl.org/pub/rapid-release/species/Homo_sapiens/GCA_009914755.4/ensembl/geneset/2022_06/Homo_sapiens-GCA_009914755.4-2022_06-genes.gtf.gz: 1838
cdot-0.2.32.all-builds-refseq-grch37_grch38_t2t-chm13v2.0.json.gz
Method: Combine multiple genome builds
Urls:
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/GCF_009914755.1-RS_2025_08/GCF_009914755.1_T2T-CHM13v2.0_genomic.gff.gz: 180091
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/GCF_000001405.40-RS_2025_08/GCF_000001405.40_GRCh38.p14_genomic.gff.gz: 178096
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/GCF_000001405.25-RS_2024_09/GCF_000001405.25_GRCh37.p13_genomic.gff.gz: 89909
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/109.20211119/GCF_000001405.39_GRCh38.p13/GCF_000001405.39_GRCh38.p13_genomic.gff.gz: 75738
- https://ftp.ncbi.nlm.nih.gov/genomes/archive/old_refseq/Homo_sapiens/ARCHIVE/ANNOTATION_RELEASE.107/GFF/ref_GRCh38.p2_top_level.gff3.gz: 72137
- postgresql://uta.biocommons.org/uta_20241220: 47669
- https://ftp.ncbi.nlm.nih.gov/genomes/archive/old_refseq/Homo_sapiens/ARCHIVE/ANNOTATION_RELEASE.108/GFF/ref_GRCh38.p7_top_level.gff3.gz: 45908
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/109/GCF_000001405.38_GRCh38.p12/GCF_000001405.38_GRCh38.p12_genomic.gff.gz: 38043
- https://ftp.ncbi.nlm.nih.gov/genomes/archive/old_refseq/Homo_sapiens/ARCHIVE/ANNOTATION_RELEASE.105/GFF/ref_GRCh37.p13_top_level.gff3.gz: 37273
- https://ftp.ncbi.nlm.nih.gov/genomes/archive/old_refseq/Homo_sapiens/ARCHIVE/ANNOTATION_RELEASE.106/GFF/ref_GRCh38_top_level.gff3.gz: 34396
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/105.20190906/GCF_000001405.25_GRCh37.p13/GCF_000001405.25_GRCh37.p13_genomic.gff.gz: 15490
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/109.20200522/GCF_000001405.39_GRCh38.p13/GCF_000001405.39_GRCh38.p13_genomic.gff.gz: 12841
- https://ftp.ncbi.nlm.nih.gov/genomes/archive/old_refseq/Homo_sapiens/ARCHIVE/BUILD.37.3/GFF/ref_GRCh37.p5_top_level.gff3.gz: 3978
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/109.20190607/GCF_000001405.39_GRCh38.p13/GCF_000001405.39_GRCh38.p13_genomic.gff.gz: 3876
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/110/GCF_000001405.40_GRCh38.p14/GCF_000001405.40_GRCh38.p14_genomic.gff.gz: 3637
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/GCF_009914755.1-RS_2023_03/GCF_009914755.1_T2T-CHM13v2.0_genomic.gff.gz: 2374
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/GCF_000001405.40-RS_2023_03/GCF_000001405.40_GRCh38.p14_genomic.gff.gz: 2176
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/109.20210514/GCF_000001405.39_GRCh38.p13/GCF_000001405.39_GRCh38.p13_genomic.gff.gz: 2131
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/105.20201022/GCF_000001405.25_GRCh37.p13/GCF_000001405.25_GRCh37.p13_genomic.gff.gz: 1948
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/109.20190905/GCF_000001405.39_GRCh38.p13/GCF_000001405.39_GRCh38.p13_genomic.gff.gz: 1943
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/GCF_000001405.40-RS_2024_08/GCF_000001405.40_GRCh38.p14_genomic.gff.gz: 1923
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/GCF_009914755.1-RS_2024_08/GCF_009914755.1_T2T-CHM13v2.0_genomic.gff.gz: 1912
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/110/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.gff.gz: 1817
- https://ftp.ncbi.nlm.nih.gov/genomes/archive/old_refseq/Homo_sapiens/ARCHIVE/ANNOTATION_RELEASE.104/GFF/ref_GRCh37.p10_top_level.gff3.gz: 1757
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/109.20200815/GCF_000001405.39_GRCh38.p13/GCF_000001405.39_GRCh38.p13_genomic.gff.gz: 1667
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/109.20200228/GCF_000001405.39_GRCh38.p13/GCF_000001405.39_GRCh38.p13_genomic.gff.gz: 1645
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/109.20191205/GCF_000001405.39_GRCh38.p13/GCF_000001405.39_GRCh38.p13_genomic.gff.gz: 1581
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/109.20210226/GCF_000001405.39_GRCh38.p13/GCF_000001405.39_GRCh38.p13_genomic.gff.gz: 1425
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/109.20201120/GCF_000001405.39_GRCh38.p13/GCF_000001405.39_GRCh38.p13_genomic.gff.gz: 939
- https://ftp.ncbi.nlm.nih.gov/genomes/archive/old_refseq/Homo_sapiens/ARCHIVE/ANNOTATION_RELEASE.103/GFF/ref_GRCh37.p9_top_level.gff3.gz: 534
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/105.20220307/GCF_000001405.25_GRCh37.p13/GCF_000001405.25_GRCh37.p13_genomic.gff.gz: 462
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/GCF_009914755.1-RS_2023_10/GCF_009914755.1_T2T-CHM13v2.0_genomic.gff.gz: 450
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/GCF_000001405.40-RS_2023_10/GCF_000001405.40_GRCh38.p14_genomic.gff.gz: 413
cdot-0.2.32.refseq.GRCh37.json.gz
Method: Merge historical
Urls:
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/GCF_000001405.25-RS_2024_09/GCF_000001405.25_GRCh37.p13_genomic.gff.gz: 90364
- postgresql://uta.biocommons.org/uta_20241220: 45969
- https://ftp.ncbi.nlm.nih.gov/genomes/archive/old_refseq/Homo_sapiens/ARCHIVE/ANNOTATION_RELEASE.105/GFF/ref_GRCh37.p13_top_level.gff3.gz: 37307
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/105.20190906/GCF_000001405.25_GRCh37.p13/GCF_000001405.25_GRCh37.p13_genomic.gff.gz: 15504
- https://ftp.ncbi.nlm.nih.gov/genomes/archive/old_refseq/Homo_sapiens/ARCHIVE/BUILD.37.3/GFF/ref_GRCh37.p5_top_level.gff3.gz: 3980
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/105.20201022/GCF_000001405.25_GRCh37.p13/GCF_000001405.25_GRCh37.p13_gen...
data_v0.2.31
cdot-0.2.31.ensembl.GRCh37.json.gz
Method: Merge historical
Urls:
- https://ftp.ensembl.org/pub/grch37/release-87/gtf/homo_sapiens/Homo_sapiens.GRCh37.87.gtf.gz: 196501
cdot-0.2.31.Homo_sapiens_GRCh37_Ensembl_87.gtf.json.gz
Method: Single GFF3 file
Urls:
- https://ftp.ensembl.org/pub/grch37/release-87/gtf/homo_sapiens/Homo_sapiens.GRCh37.87.gtf.gz: 196501
cdot-0.2.31.ensembl.GRCh38.json.gz
Method: Merge historical
Urls:
- https://ftp.ensembl.org/pub/release-114/gtf/homo_sapiens/Homo_sapiens.GRCh38.114.gtf.gz: 387954
- https://ftp.ensembl.org/pub/release-112/gtf/homo_sapiens/Homo_sapiens.GRCh38.112.gtf.gz: 15424
- https://ftp.ensembl.org/pub/release-95/gtf/homo_sapiens/Homo_sapiens.GRCh38.95.gtf.gz: 11320
- https://ftp.ensembl.org/pub/release-106/gtf/homo_sapiens/Homo_sapiens.GRCh38.106.gtf.gz: 5036
- https://ftp.ensembl.org/pub/release-104/gtf/homo_sapiens/Homo_sapiens.GRCh38.104.gtf.gz: 4367
- https://ftp.ensembl.org/pub/release-84/gtf/homo_sapiens/Homo_sapiens.GRCh38.84.gtf.gz: 4226
- https://ftp.ensembl.org/pub/release-96/gtf/homo_sapiens/Homo_sapiens.GRCh38.96.gtf.gz: 3535
- https://ftp.ensembl.org/pub/release-97/gtf/homo_sapiens/Homo_sapiens.GRCh38.97.gtf.gz: 2499
- https://ftp.ensembl.org/pub/release-100/gtf/homo_sapiens/Homo_sapiens.GRCh38.100.gtf.gz: 1862
- https://ftp.ensembl.org/pub/release-103/gtf/homo_sapiens/Homo_sapiens.GRCh38.103.gtf.gz: 1832
- https://ftp.ensembl.org/pub/release-101/gtf/homo_sapiens/Homo_sapiens.GRCh38.101.gtf.gz: 1830
- https://ftp.ensembl.org/pub/release-91/gtf/homo_sapiens/Homo_sapiens.GRCh38.91.gtf.gz: 1803
- https://ftp.ensembl.org/pub/release-102/gtf/homo_sapiens/Homo_sapiens.GRCh38.102.gtf.gz: 1462
- https://ftp.ensembl.org/pub/release-99/gtf/homo_sapiens/Homo_sapiens.GRCh38.99.gtf.gz: 1435
- https://ftp.ensembl.org/pub/release-87/gtf/homo_sapiens/Homo_sapiens.GRCh38.87.gtf.gz: 1077
- https://ftp.ensembl.org/pub/release-93/gtf/homo_sapiens/Homo_sapiens.GRCh38.93.gtf.gz: 947
- https://ftp.ensembl.org/pub/release-109/gtf/homo_sapiens/Homo_sapiens.GRCh38.109.gtf.gz: 907
- https://ftp.ensembl.org/pub/release-98/gtf/homo_sapiens/Homo_sapiens.GRCh38.98.gtf.gz: 861
- https://ftp.ensembl.org/pub/release-82/gtf/homo_sapiens/Homo_sapiens.GRCh38.82.gtf.gz: 793
- https://ftp.ensembl.org/pub/release-105/gtf/homo_sapiens/Homo_sapiens.GRCh38.105.gtf.gz: 708
- https://ftp.ensembl.org/pub/release-111/gtf/homo_sapiens/Homo_sapiens.GRCh38.111.gtf.gz: 633
- https://ftp.ensembl.org/pub/release-107/gtf/homo_sapiens/Homo_sapiens.GRCh38.107.gtf.gz: 526
- https://ftp.ensembl.org/pub/release-89/gtf/homo_sapiens/Homo_sapiens.GRCh38.89.gtf.gz: 384
- https://ftp.ensembl.org/pub/release-108/gtf/homo_sapiens/Homo_sapiens.GRCh38.108.gtf.gz: 337
- https://ftp.ensembl.org/pub/release-113/gtf/homo_sapiens/Homo_sapiens.GRCh38.113.gtf.gz: 268
- https://ftp.ensembl.org/pub/release-110/gtf/homo_sapiens/Homo_sapiens.GRCh38.110.gtf.gz: 260
cdot-0.2.31.Homo_sapiens_GRCh38_Ensembl_110.gtf.json.gz
Method: Single GFF3 file
Urls:
cdot-0.2.31.Homo_sapiens_GRCh38_Ensembl_111.gtf.json.gz
Method: Single GFF3 file
Urls:
cdot-0.2.31.Homo_sapiens_GRCh38_Ensembl_112.gtf.json.gz
Method: Single GFF3 file
Urls:
cdot-0.2.31.Homo_sapiens_GRCh38_Ensembl_113.gtf.json.gz
Method: Single GFF3 file
Urls:
cdot-0.2.31.Homo_sapiens_GRCh38_Ensembl_114.gtf.json.gz
Method: Single GFF3 file
Urls:
cdot-0.2.31.ensembl.T2T-CHM13v2.0.json.gz
Method: Merge historical
Urls:
- https://ftp.ensembl.org/pub/rapid-release/species/Homo_sapiens/GCA_009914755.4/ensembl/geneset/2022_07/Homo_sapiens-GCA_009914755.4-2022_07-genes.gtf.gz: 236651
- https://ftp.ensembl.org/pub/rapid-release/species/Homo_sapiens/GCA_009914755.4/ensembl/geneset/2022_06/Homo_sapiens-GCA_009914755.4-2022_06-genes.gtf.gz: 1838
cdot-0.2.31.all-builds-refseq-grch37_grch38_t2t-chm13v2.0.json.gz
Method: Combine multiple genome builds
Urls:
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/GCF_009914755.1-RS_2025_08/GCF_009914755.1_T2T-CHM13v2.0_genomic.gff.gz: 180091
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/GCF_000001405.40-RS_2025_08/GCF_000001405.40_GRCh38.p14_genomic.gff.gz: 178096
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/GCF_000001405.25-RS_2024_09/GCF_000001405.25_GRCh37.p13_genomic.gff.gz: 89909
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/109.20211119/GCF_000001405.39_GRCh38.p13/GCF_000001405.39_GRCh38.p13_genomic.gff.gz: 75738
- https://ftp.ncbi.nlm.nih.gov/genomes/archive/old_refseq/Homo_sapiens/ARCHIVE/ANNOTATION_RELEASE.107/GFF/ref_GRCh38.p2_top_level.gff3.gz: 72137
- postgresql://uta.biocommons.org/uta_20241220: 47669
- https://ftp.ncbi.nlm.nih.gov/genomes/archive/old_refseq/Homo_sapiens/ARCHIVE/ANNOTATION_RELEASE.108/GFF/ref_GRCh38.p7_top_level.gff3.gz: 45908
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/109/GCF_000001405.38_GRCh38.p12/GCF_000001405.38_GRCh38.p12_genomic.gff.gz: 38043
- https://ftp.ncbi.nlm.nih.gov/genomes/archive/old_refseq/Homo_sapiens/ARCHIVE/ANNOTATION_RELEASE.105/GFF/ref_GRCh37.p13_top_level.gff3.gz: 37273
- https://ftp.ncbi.nlm.nih.gov/genomes/archive/old_refseq/Homo_sapiens/ARCHIVE/ANNOTATION_RELEASE.106/GFF/ref_GRCh38_top_level.gff3.gz: 34396
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/105.20190906/GCF_000001405.25_GRCh37.p13/GCF_000001405.25_GRCh37.p13_genomic.gff.gz: 15490
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/109.20200522/GCF_000001405.39_GRCh38.p13/GCF_000001405.39_GRCh38.p13_genomic.gff.gz: 12841
- https://ftp.ncbi.nlm.nih.gov/genomes/archive/old_refseq/Homo_sapiens/ARCHIVE/BUILD.37.3/GFF/ref_GRCh37.p5_top_level.gff3.gz: 3978
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/109.20190607/GCF_000001405.39_GRCh38.p13/GCF_000001405.39_GRCh38.p13_genomic.gff.gz: 3876
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/110/GCF_000001405.40_GRCh38.p14/GCF_000001405.40_GRCh38.p14_genomic.gff.gz: 3637
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/GCF_009914755.1-RS_2023_03/GCF_009914755.1_T2T-CHM13v2.0_genomic.gff.gz: 2374
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/GCF_000001405.40-RS_2023_03/GCF_000001405.40_GRCh38.p14_genomic.gff.gz: 2176
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/109.20210514/GCF_000001405.39_GRCh38.p13/GCF_000001405.39_GRCh38.p13_genomic.gff.gz: 2131
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/105.20201022/GCF_000001405.25_GRCh37.p13/GCF_000001405.25_GRCh37.p13_genomic.gff.gz: 1948
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/109.20190905/GCF_000001405.39_GRCh38.p13/GCF_000001405.39_GRCh38.p13_genomic.gff.gz: 1943
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/GCF_000001405.40-RS_2024_08/GCF_000001405.40_GRCh38.p14_genomic.gff.gz: 1923
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/GCF_009914755.1-RS_2024_08/GCF_009914755.1_T2T-CHM13v2.0_genomic.gff.gz: 1912
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/110/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.gff.gz: 1817
- https://ftp.ncbi.nlm.nih.gov/genomes/archive/old_refseq/Homo_sapiens/ARCHIVE/ANNOTATION_RELEASE.104/GFF/ref_GRCh37.p10_top_level.gff3.gz: 1757
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/109.20200815/GCF_000001405.39_GRCh38.p13/GCF_000001405.39_GRCh38.p13_genomic.gff.gz: 1667
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/109.20200228/GCF_000001405.39_GRCh38.p13/GCF_000001405.39_GRCh38.p13_genomic.gff.gz: 1645
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/109.20191205/GCF_000001405.39_GRCh38.p13/GCF_000001405.39_GRCh38.p13_genomic.gff.gz: 1581
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/109.20210226/GCF_000001405.39_GRCh38.p13/GCF_000001405.39_GRCh38.p13_genomic.gff.gz: 1425
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/109.20201120/GCF_000001405.39_GRCh38.p13/GCF_000001405.39_GRCh38.p13_genomic.gff.gz: 939
- https://ftp.ncbi.nlm.nih.gov/genomes/archive/old_refseq/Homo_sapiens/ARCHIVE/ANNOTATION_RELEASE.103/GFF/ref_GRCh37.p9_top_level.gff3.gz: 534
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/105.20220307/GCF_000001405.25_GRCh37.p13/GCF_000001405.25_GRCh37.p13_genomic.gff.gz: 462
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/GCF_009914755.1-RS_2023_10/GCF_009914755.1_T2T-CHM13v2.0_genomic.gff.gz: 450
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/GCF_000001405.40-RS_2023_10/GCF_000001405.40_GRCh38.p14_genomic.gff.gz: 413
cdot-0.2.31.refseq.GRCh37.json.gz
Method: Merge historical
Urls:
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/GCF_000001405.25-RS_2024_09/GCF_000001405.25_GRCh37.p13_genomic.gff.gz: 90364
- postgresql://uta.biocommons.org/uta_20241220: 45969
- https://ftp.ncbi.nlm.nih.gov/genomes/archive/old_refseq/Homo_sapiens/ARCHIVE/ANNOTATION_RELEASE.105/GFF/ref_GRCh37.p13_top_level.gff3.gz: 37307
- https://ftp.ncbi.nlm.nih.gov/genomes/all/annotation_releases/9606/105.20190906/GCF_000001405.25_GRCh37.p13/GCF_000001405.25_GRCh37.p13_genomic.gff.gz: 15504
- https://ftp.ncbi.nlm.nih.gov/genomes/archive/old_refseq/Hom...
data_v0.2.30
Add Ensembl/GRCh37 canonical tags
data_v0.2.29
Ensembl add HGNC
data_v0.2.28
Ensembl 13,14, UTA 2024, RefSeq MT
data_v0.2.27
Add protein for Ensembl - so it can now do c_to_p
RefSeq - add RS_2024_08 - GRCh38 and T2T-CHM13v2
v0.2.26
Bumped version to 0.2.26 to catch up with data release. Only new client functionality is #81 'data_release' helper functions
All other changes in this release were for data (and contained in data_v0.2.26)
Added
- #81 New 'data_release' code eg 'get_latest_combo_file_urls' that looks on GitHub to find latest data
- New GFFs: RefSeq RS_2023_10, Ensembl 111, 112
- #79 - RefSeq MT transcripts
- #66 - We now store 'Note' field (thanks holtgrewe for suggestion)
- Added requirements.txt for 'generate_transcript_data' sections
- client / JSON data schema version compatability check
Changed
- #56 - Fix occasional UTA duplicated exons
- #57 - Correctly handle retrieving genomic position and dealing w/indels in GFF (thanks ltnetcase for reporting)
- #60 - Fix for missing protein IDs due to Genbank / GenBank (thanks holtgrewe)
- #64 - Split code/data versions. json.gz are now labelled according to data schema version (thanks holtgrewe)
- Renamed 'CHM13v2.0' to 'T2T-CHM13v2.0' so it could work with biocommons bioutils
- #72 - Correctly handle ncRNA_gene genes (thanks holtgrewe for reporting)
- #73 - HGNC ID was missing for some chrMT genes in Ensembl
data_v0.2.26
Ensembl 112, RefSeq MT transcripts
data_v0.2.25
Correctly read gene symbol from non-standard genes
data_v0.2.24
- Fixed issue #72 - RNA gene symbols missing for ENSEMBL