Using BioPAX-Parser (BiP) to enrich lists of genes or proteins with pathway data.

ABSTRACT:

Background

Pathway enrichment analysis (PEA) is a well-established methodology for interpreting a list of genes and proteins of interest related to a condition under investigation. This paper aims to extend our previous work in which we introduced a preliminary comparative analysis of pathway enrichment analysis tools. We extended the earlier work by providing more case studies, comparing BiP enrichment performance with other well-known PEA software tools.

Methods

PEA uses pathway information to discover connections between a list of genes and proteins as well as biological mechanisms, helping researchers to overcome the problem of explaining biological entity lists of interest disconnected from the biological context.

Results

We compared the results of BiP with some

SUBMITTER: Agapito G 

PROVIDER: S-EPMC8482563 | biostudies-literature | 2021 Sep

REPOSITORIES: biostudies-literature