gtex_rna: GTEx RNA tissue specificity annotations

In lagelab/Genoppi: genoppi

GTEx RNA tissue specificity annotations

Description

A dataset containing tissue specificty annotations for 20,024 genes in 53 tissues derived from GTEx RNA-sequencing data. See cited reference for details on the definition of tissue-specific genes. In brief, genes that rank in the top 10 percent of a tissue-based t-statistic distribution are defined as the specific genes for the tissue.

Usage

gtex_rna

Format

A data frame with 1,316,785 rows and 3 variables:

tissue

Tissue name

gene

HGNC gene symbol

significant

Logical variable indicating whether or not the gene is tissue-specific

Source

GTEx.tstat.tsv dataset (2018-06-25 release) downloaded on 2020-06-15 from: https://data.broadinstitute.org/alkesgroup/LDSCORE/LDSC_SEG_ldscores/tstats/

References

Finucane HK, Reshef YA, Anttila V, et al. Heritability enrichment of specifically expressed genes identifies disease-relevant tissues and cell types. Nat Genet. 2018;50(4):621-629. doi:10.1038/s41588-018-0081-4

See Also

Other datasets: accession_gene_table, bioplex_table, example_data2, example_data3, example_data, genes_snps, gnomad_table, goa_bp_table, goa_cc_table, goa_mf_table, gtex_protein, gwas_table, hgnc_group_table, hpa_rna, inweb_table, irefindex_table, msigdb_c1_table, msigdb_c2_table, msigdb_c3_table, msigdb_c4_table, msigdb_c5_table, msigdb_c6_table, msigdb_c7_table, msigdb_h_table

lagelab/Genoppi documentation built on Oct. 13, 2022, 2:36 p.m.