Open AccessMicroarray, IPA and GSEA Analysis in Mice Models
Author(s) -
Stephanie N. Oprescu,
Katharine A. Horzmann,
Yue Feng,
Jennifer L. Freeman,
Shihuan Kuang
Publication year - 2018
Publication title -
bio-protocol
Language(s) - English
Resource type - Journals
ISSN - 2331-8325
DOI - 10.21769/bioprotoc.2999
Subject(s) - microarray analysis techniques , microarray , computational biology , transcriptome , ingenuity , biology , gene , gene expression , bioinformatics , genetics , neoclassical economics , economics
This protocol details a method to analyze two tissue samples at the transcriptomic level using microarray analysis, ingenuity pathway analysis (IPA) and gene set enrichment analysis (GSEA). Methods such as these provide insight into the mechanisms underlying biological differences across two samples and thus can be applied to interrogate a variety of processes across different tissue samples, conditions, and the like. The full method detailed below can be applied to determine the effects of muscle-specific Notch1 activation in the mdx mouse model and to analyze previously published microarray data of human liposarcoma cell lines.