AUTHOR=Cardozo Lucas E. , Russo Pedro S. T. , Gomes-Correia Bruno , Araujo-Pereira Mariana , Sepúlveda-Hermosilla Gonzalo , Maracaja-Coutinho Vinicius , Nakaya Helder I. 

TITLE=webCEMiTool: Co-expression Modular Analysis Made Easy

JOURNAL=Frontiers in Genetics

VOLUME=10

YEAR=2019

URL=https://www.frontiersin.org/journals/genetics/articles/10.3389/fgene.2019.00146

DOI=10.3389/fgene.2019.00146

ISSN=1664-8021

ABSTRACT=<p>Co-expression analysis has been widely used to elucidate the functional architecture of genes under different biological processes. Such analysis, however, requires substantial knowledge about programming languages and/or bioinformatics skills. We present webCEMiTool,<xref ref-type="fn" rid="fn6"><sup>1</sup></xref>  a unique online tool that performs comprehensive modular analyses in a fully automated manner. The webCEMiTool not only identifies co-expression gene modules but also performs several functional analyses on them. In addition, webCEMiTool integrates transcriptomic data with interactome information (i.e., protein-protein interactions) and identifies potential hubs on each network. The tool generates user-friendly html reports that allow users to search for specific genes in each module, as well as check if a module contains genes overrepresented in specific pathways or altered in a specific sample phenotype. We used webCEMiTool to perform a modular analysis of single-cell RNA-seq data of human cells infected with either Zika virus or dengue virus.</p>