Joint Open Genome and Omics Platform (JoGo)

Search by GTEx Variants (in JoGo)

Regionname

Examples: ALDH2_chr12_111761933_111822532, HBB_chr11_5220464_5232071.

Genename

Examples: ALDH2, BRCA1.

Chr

Chromosome name (e.g., chr11).

Tissue

GTEx tissue type for expression analysis.

Snpeff annotation impact

Impact severity level (e.g., HIGH, MODERATE, LOW, MODIFIER).

Snpeff annotation impact detail

Detailed annotation impact classification.

Start

Start genomic position (GRCh38).

End

End genomic position (GRCh38).

Pos

Exact genomic position (GRCh38).

-log10(P-value)

-log10(p-value) threshold for GTEx eQTL significance. Examples: pval=0.01 (-log10(pval)=2), pval=0.001 (-log10(pval)=3).

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Please provide at least one search criterion: genename, regionname, pos, snpeff annotation impact, or tissue.

pos	genename annotation hgvs_c hgvs_p	tissue expression gene -log10(pval) slope Tissue name in GTEx database(the target eQTL tissue name of the GTEx database) The -log10(nominal pvalue) in GTEx database Slope in GTEx database (positive value:alt allele has higher gene expression)	ahapid achapid acthapid actghapid ahapid_count achapid_count acthapid_count actghapid_count	AHAPIDS ahapids	ACHAPIDS achapids	ACTHAPIDS acthapids	ACTGHAPIDS actghapids	haplotypeids haplotypeids	af allele frequency in GTEx database	ms The number of samples with minor allele in GTEx database	ma The number of minor allele count in GTEx database	ver GTEx version	vid Variant ID in GTEx database	strand strand	impact	chr	ref	alt	external