ChemGAPP: a tool for chemical genomics analysis and phenotypic profiling.

ABSTRACT:

Motivation

High-throughput chemical genomic screens produce informative datasets, providing valuable insights into unknown gene function on a genome-wide level. However, there is currently no comprehensive analytic package publicly available. We developed ChemGAPP to bridge this gap. ChemGAPP integrates various steps in a streamlined and user-friendly format, including rigorous quality control measures to curate screening data.

Results

ChemGAPP provides three sub-packages for different chemical-genomic screens: ChemGAPP Big for large-scale screens; ChemGAPP Small for small-scale screens; and ChemGAPP GI for genetic interaction screens. ChemGAPP Big, tested against the Escherichiacoli KEIO collection, revealed reliable fitness scores which displayed biologically relevant phen

SUBMITTER: Doherty HM 

PROVIDER: S-EPMC10085634 | biostudies-literature | 2023 Apr

REPOSITORIES: biostudies-literature