| Title: | Functional Genomics Repository for POST-GWAS Analysis |
|---|---|
| Description: | A collection of datasets essential for functional genomic analysis. Gene names, gene positions, cytoband information, sourced from Ensembl and phenotypes association graph prepared from GWAScatalog are included. Data is available in both GRCh37 and 38 builds. These datasets facilitate a wide range of genomic studies, including the identification of genetic variants, exploration of genomic features, and post-GWAS functional analysis. |
| Authors: | Alireza Ani [aut, cre], Ahmad Vaez [aut] |
| Maintainer: | Alireza Ani <[email protected]> |
| License: | GPL-3 |
| Version: | 1.3.2.0 |
| Built: | 2024-12-09 07:01:30 UTC |
| Source: | CRAN |
A dataset containing cytoband information based on GRCh37.
cytoband_grch37cytoband_grch37
A data frame with 4 columns:
chromosome
start position
end position
band name
Ensembl, https://www.ensembl.org
Harrison, PW, et al. (2024). Ensembl 2024. Nucleic Acids Research, 52, Pages D891–D899. doi:10.1093/nar/gkad1049
data(cytoband_grch37)data(cytoband_grch37)
A dataset containing cytoband information based on GRCh38.
cytoband_grch38cytoband_grch38
A data frame with 4 columns:
chromosome
start position
end position
band name
Ensembl, https://www.ensembl.org
Harrison, PW, et al. (2024). Ensembl 2024. Nucleic Acids Research, 52, Pages D891–D899. doi:10.1093/nar/gkad1049
data(cytoband_grch38)data(cytoband_grch38)
A dataset containing gene names based on GRCh37.
gene_names_grch37gene_names_grch37
A data frame with 6 columns:
Gene identifier
Gene name
Chromosome
Start position
End position
Gene type
Ensembl, https://www.ensembl.org
Harrison, PW, et al. (2024). Ensembl 2024. Nucleic Acids Research, 52, Pages D891–D899. doi:10.1093/nar/gkad1049
data(gene_names_grch37)data(gene_names_grch37)
A dataset containing gene names based on GRCh38.
gene_names_grch38gene_names_grch38
A data frame with 6 columns:
Gene identifier
Gene name
Gene name
Gene name
Gene name
Gene name
Ensembl, https://www.ensembl.org
Harrison, PW, et al. (2024). Ensembl 2024. Nucleic Acids Research, 52, Pages D891–D899. doi:10.1093/nar/gkad1049
data(gene_names_grch38)data(gene_names_grch38)
A graph object of GWAScatalog data. The association between variants and phenotypes are indicated.
GWASCat_graphGWASCat_graph
An object of igraph class.
GWAS Catalog, https://www.ebi.ac.uk/gwas
Sollis, E, et al. (2022). The NHGRI-EBI GWAS Catalog: knowledgebase and deposition resource. Nucleic Acids Research, 51, Pages D977–D985. doi:10.1093/nar/gkac1010
data(GWASCat_graph)data(GWASCat_graph)