genes_snps: 1000 Genomes SNP to HGNC gene symbol mapping

In lagelab/Genoppi: genoppi

1000 Genomes SNP to HGNC gene symbol mapping

Description

A data set containing 1000 Genomes phase 3 single-nucleotide polymorphsims (SNPs) mapped to 18,116 gene symbols, using linkage disequilibrium information from the CEU population. See cited Genoppi reference for details on mapping method.

Usage

genes_snps

Format

A hash object with each of 18,116 genes as key and a vector of SNPs as value

Source

snp_to_gene.Rdata file created by April Kim.

References

1000 Genomes Project Consortium, Auton A, Brooks LD, et al. A global reference for human genetic variation. Nature. 2015;526(7571):68-74. doi:10.1038/nature15393

Pintacuda G, Lassen FH, Hsu YH, Kim A, Martín JM, Malolepsza E et al. Genoppi is an open-source software for robust and standardized integration of proteomic and genetic data. Nat Commun. 2021;12(1):2580. doi:10.1038/s41467-021-22648-5

See Also

Other datasets: accession_gene_table, bioplex_table, example_data2, example_data3, example_data, gnomad_table, goa_bp_table, goa_cc_table, goa_mf_table, gtex_protein, gtex_rna, 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.