| Title: | LINCS Knock-Out Data Package |
|---|---|
| Description: | Contains consensus genomic signatures (CGS) for experimental cell-line specific gene knock-outs as well as baseline gene expression data for a subset of experimental cell-lines. Intended for use with package KEGGlincs. |
| Authors: | Shana White |
| Maintainer: | Shana White <[email protected]> |
| License: | MIT + file LICENSE |
| Version: | 1.39.0 |
| Built: | 2026-10-10 10:40:48 UTC |
| Source: | https://github.com/bioc/KOdata |
This data set contains baseline expression measurements for genes in cell lines [without any experimental perturbations] as profiled by the LINCS data consortium
data(gene_cell_info)data(gene_cell_info)
A data frame with 1703457 observations on the following 6 variables.
pr_gene_symbola character vector
cella character vector
basex_affxa numeric vector
basex_rnaseqa numeric vector
copy_numbera numeric vector
is_expresseda logical vector
A data.frame object
This data set contains consensus genome signatures (CGS) that are the result of experimental knock-out studies conducted by the BROAD Institute.
data(KO_data)data(KO_data)
A data frame with 36720 observations on the following 9 variables.
cell_id a character vector
pert_desc a character vector
pert_time a numeric vector
dn100_bing a character vector
dn100_full a character vector
dn50_lm a character vector
up100_bing a character vector
up100_full a character vector
up50_lm a character vector
A data.frame object
http://lincsportal.ccs.miami.edu
KOdata: an R data package designed to be used with KEGGlincs