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RNA-seq and Genotype
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| Gene expression across 22 tissues |
CattleCell-GTEx v0.BuIK_TPM |
601MB |
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| Gene expression across 100 common tissue-cell pairs |
CattleCell-GTEx_v0.Celltype_TPM |
4.5GB |
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| Genotype |
CattleCell-GTEx v0.ALL_samples_Genetyps |
19GB |
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Meta-data and annotation
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| Meta table for RNA-Seg samples |
CattleCell-GTEx_v0.RNA-seg_sample_info.csv |
1.47MB |
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| Gene annotation of Bos taurus.ARS-UCD1.2 (v 110) |
Bos_taurus.ARS-UCD1.2.110.gtf |
375MB |
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Genotype imputation panel
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CattleSNPs-Beagle
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CattleSNPs_Beagle.zip |
16.3GB |
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CattleSNPs-Shapeit5
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CattleSNPs_Shapeit5.zip |
17.4GB |
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The Holstein pangenome variation imputation reference panel (HolPIP)
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HolsteinPangenomeVariationImputationReferencePanel-HolPIP.vcf.gz |
4.74GB |
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eQTL data
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| (cis-beQTL) Significant associations for each PCGs based on permutation mode |
CattleCell-GTEx_v0.beQTL_significant |
413MB |
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| (cis-cseQTL) Significant associations for each PCGs based on permutation mode |
CattleCell-GTEx_v0.cseQTL_significant |
3GB |
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| (cis-cell-type ieQTL) Significant associations for each PCGs based on permutation mode |
CattleCell-GTEx_v0.Cell-type-ieQTL_significant |
667MB |
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| (cis-cell-state ieOTL) Significant associations for each PCGs based on permutation mode |
CattleCell-GTEx_v0.Cell-state-ieQTL_significant |
412MB |
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| (cis-beQTL) Fine-mapping results from SuSiE for each beGene |
CattleCell-GTEx_v0.beQTL_finemap |
50MB |
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| (cis-gseQTL) Fine-mapping results from SuSiE for each cseGene |
CattleCell-GTEx_v0.cseQTL_finemap |
220MB |
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Integration data
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| TWAS models (ElasticNet) |
TWAS models |
228MB |
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| TWAS results |
TWAS results |
147MB |
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| Colocalization results (beQTL, cseQTL, cell-type ieQTL, and cell-state ieQTL) |
Coloc results |
18.9MB |
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