serval:BIB_179FA8832883
GOATOOLS: A Python library for Gene Ontology analyses.
10.1038/s41598-018-28948-z
000439026000033
30022098
Klopfenstein
D.V.
author
Zhang
L.
author
Pedersen
B.S.
author
RamÃrez
F.
author
Warwick Vesztrocy
A.
author
Naldi
A.
author
Mungall
C.J.
author
Yunes
J.M.
author
Botvinnik
O.
author
Weigel
M.
author
Dampier
W.
author
Dessimoz
C.
author
Flick
P.
author
Tang
H.
author
article
2018
Scientific Reports
2045-2322
2045-2322
journal
8
1
10872
The biological interpretation of gene lists with interesting shared properties, such as up- or down-regulation in a particular experiment, is typically accomplished using gene ontology enrichment analysis tools. Given a list of genes, a gene ontology (GO) enrichment analysis may return hundreds of statistically significant GO results in a "flat" list, which can be challenging to summarize. It can also be difficult to keep pace with rapidly expanding biological knowledge, which often results in daily changes to any of the over 47,000 gene ontologies that describe biological knowledge. GOATOOLS, a Python-based library, makes it more efficient to stay current with the latest ontologies and annotations, perform gene ontology enrichment analyses to determine over- and under-represented terms, and organize results for greater clarity and easier interpretation using a novel GOATOOLS GO grouping method. We performed functional analyses on both stochastic simulation data and real data from a published RNA-seq study to compare the enrichment results from GOATOOLS to two other popular tools: DAVID and GOstats. GOATOOLS is freely available through GitHub: https://github.com/tanghaibao/goatools .
eng
60_published
true
peer-reviewed
University of Lausanne
mailto:serval_help@unil.ch
http://www.unil.ch/serval
http://serval.unil.ch/disclaimer
https://serval.unil.ch/notice/serval:BIB_179FA8832883