Environmental pathways affecting gene expression (E.PAGE) as an R package to predict gene-environment associations.

ABSTRACT: The purpose of this study is to manually and semi-automatically curate a database and develop an R package that will act as a comprehensive resource to understand how biological processes are dysregulated due to interactions with environmental factors. The initial database search run on the Gene Expression Omnibus and the Molecular Signature Database retrieved a total of 90,018 articles. After title and abstract screening against pre-set criteria, a total of 237 datasets were selected and 522 gene modules were manually annotated. We then curated a database containing four environmental factors, cigarette smoking, diet, infections and toxic chemicals, along with a total of 25,789 genes that had an association with one or more of gene modules. The database and statistical analysis package wa

SUBMITTER: Muralidharan S 

PROVIDER: S-EPMC9636158 | biostudies-literature | 2022 Nov

REPOSITORIES: biostudies-literature