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hg19-constrained-coding-regions-quinlan-lab-v1
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public |
Constrained Coding Regions (CCRs): https://www.nature.com/articles/s41588-018-0294-6. Regions of human specific coding constraint presumably under strong purifying selection. Constraint is based on the lack of variation within the gnomAD dataset calibrated by the size and CpG content of the region. Regional Constraint is broken up into Autosomes and the X-Chromosome. Chromosomes have been remapped from Ensembl GRCh37 to UCSC hg19.
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2025-03-25 |
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grch37-constrained-coding-regions-quinlan-lab-v1
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public |
Constrained Coding Regions (CCRs): https://www.nature.com/articles/s41588-018-0294-6. Regions of human specific coding constraint presumably under strong purifying selection. Constraint is based on the lack of variation within the gnomAD dataset calibrated by the size and CpG content of the region. Regional Constraint is broken up into Autosomes and the X-Chromosome.
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2025-03-25 |
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hg38-simple-repeats-ucsc-v1
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public |
Simple repeats track from UCSC. Simple tandem repeats and imperfect repeats identified by the Tandem Repeats Finder (TRF) algorithm.
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2025-03-25 |
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hg19-simple-repeats-ucsc-v1
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public |
Simple repeats track from UCSC. Simple tandem repeats and imperfect repeats identified by the Tandem Repeats Finder (TRF) algorithm. Any scaffoldings not in the hg19.genome file are removed from the final file
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2025-03-25 |
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grch38-simple-repeats-ucsc-v1
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public |
Simple repeats track from UCSC. Simple tandem repeats and imperfect repeats identified by the Tandem Repeats Finder (TRF) algorithm. Remapped from UCSC hg38 to Ensembl GRCh38
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2025-03-25 |
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grch37-simple-repeats-ucsc-v1
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public |
Simple repeats track from UCSC. Simple tandem repeats and imperfect repeats identified by the Tandem Repeats Finder (TRF) algorithm. Any scaffoldings not in the hg19.genome file are removed from the final file. Remapped from UCSC hg19 to Ensembl GRCh37
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2025-03-25 |
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grch38-segmental-dups-ucsc-v1
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public |
Segmental duplications (SuperDups) File from UCSC. That is, duplications of at least 1kb total sequence of non-repeatmasker sequence in bed format. Remapped from UCSC hg38 to Ensembl GRCh38.
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2025-03-25 |
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grch37-segmental-dups-ucsc-v1
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public |
Segmental duplications (SuperDups) File from UCSC. That is, duplications of at least 1kb total sequence of non-repeatmasker sequence in bed format. Remapped from UCSC hg19 to Ensembl GRCh37.
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2025-03-25 |
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grch38-repeatmasker-ucsc-v1
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public |
RepeatMasker track from UCSC in bed format. Interspersed repeats and low complexity sequences identified using the RepeatMasker program. Remapped from UCSC hg38 to Ensembl GRCh38.
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2025-03-25 |
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grch37-repeatmasker-ucsc-v1
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public |
RepeatMasker track from UCSC in bed format. Interspersed repeats and low complexity sequences identified using the RepeatMasker program. Scaffoldings missing from the GGD hg19.genome file are removed. Remapped from UCSC hg19 to Ensembl GRCh37
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2025-03-25 |
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grch38-microsatellites-ucsc-v1
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public |
Microsatellites from UCSC. Region which tend to be highly polymorphic and with at least 15 di- or tri-nucletodie repeats. Remapped from UCSC hg38 to Ensembl GRCh37
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2025-03-25 |
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grch38-cytobands-ucsc-v1
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public |
Approximate locations of Chromosome Bands (cytoBands) located with Giemsa-stained chromosomes from UCSC. Remapped from UCSC hg38 to Ensembl GRCh38.
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2025-03-25 |
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grch38-pfam-domains-ucsc-v1
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public |
High quality, manually curated Pfam domain annotation in bed12 format from UCSC. Remapped from UCSC hg38 to Ensembl GRCh38. Scaffoldings that cannot remap are removed
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2025-03-25 |
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hg38-chromsizes-ncbi-v1
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public |
Chromosome lengths for the hg38 genome build from NCBI. (Used to create the Go Get Data (GGD) hg38.genome file)
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2025-03-25 |
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hg19-chromsizes-ncbi-v1
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public |
Chromosome lengths for the hg19 genome build from NCBI. (Used to create the Go Get Data (GGD) hg19.genome file)
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2025-03-25 |
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grch38-chromsizes-ncbi-v1
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public |
Chromosome lengths for the GRCh38 genome build from NCBI. (Used to create the Go Get Data (GGD) GRCh38.genome file)
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2025-03-25 |
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grch37-chromsizes-ncbi-v1
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public |
Chromosome lengths for the GRCh37 genome build from NCBI. (Used to create the Go Get Data (GGD) GRCh37.genome file)
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2025-03-25 |
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grch38-gaps-ucsc-v1
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public |
Assembly gaps from UCSC in bed fromat Remapped from UCSC hg38 to Ensembl GRCh38. Scaffoldings that cannot remap are removed
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2025-03-25 |
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grch37-gaps-ucsc-v1
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public |
Assembly gaps from UCSC in bed fromat. Remapped from UCSC hg19 to Ensembl GRCh37. Any scaffoldings that are not in the GRCh37.genome file or that cannot be remapped are removed
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2025-03-25 |
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grch38-cpg-islands-ucsc-v1
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public |
cpg islands from UCSC in bed format. Remapped from UCSC hg38 to Ensembl GRCh38. Scaffoldings that cannot remap are removed.
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2025-03-25 |
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grch37-cpg-islands-ucsc-v1
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public |
cpg islands from UCSC in bed format. Remapped from UCSC hg19 to Ensembl GRCh37. Any scaffoldings that are not in the GRCh37.genome file or that cannot be remapped are removed
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2025-03-25 |
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hg38-chrom-mapping-ensembl2ucsc-ncbi-v1
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public |
A tab delimited file containing scaffolding ids that maps GRCh38 Ensembl(GenBank) scaffoldings to hg39 UCSC scaffoldings. This is specific to patch 13 of the GRCh38 Human genome build. (1st column = Ensembl ids, 2nd column = UCSC ids)
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2025-03-25 |
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hg19-chrom-mapping-ensembl2ucsc-ncbi-v1
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public |
A tab delimited file containing scaffolding ids that maps GRCh37 Ensembl(GenBank) scaffoldings to hg19 UCSC scaffoldings. This is specific to patch 13 of the GRCh37 Human genome build. (1st column = Ensembl ids, 2nd column = UCSC ids)
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2025-03-25 |
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grch38-chrom-mapping-ucsc2ensembl-ncbi-v1
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public |
A tab delimited file containing scaffolding ids that map hg38 UCSC scaffoldings to GRCh38 Ensembl(GenBank) scaffoldings. This is specific to patch 13 of the GRCh38 Human genome build. (1st column = UCSC ids, 2nd column = Ensembl ids)
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2025-03-25 |
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grch37-chrom-mapping-ucsc2ensembl-ncbi-v1
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public |
A tab delimited file containing scaffolding ids that maps hg19 UCSC scafoldings to GRCh37 Ensembl(GenBank) scaffoldings. This is specific to patch 13 of the GRCh37 Human genome build. (1st column = UCSC ids, 2nd column = Ensembl idss)
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2025-03-25 |
