GeNeCK: A web server for gene network construction and visualization

Minzhe Zhang, Qiwei Li, Donghyeon Yu, Bo Yao, Wei Guo, Yang Xie, Guanghua Xiao

Research output: Contribution to journalArticle

2 Scopus citations

Abstract

Background: Reverse engineering approaches to infer gene regulatory networks using computational methods are of great importance to annotate gene functionality and identify hub genes. Although various statistical algorithms have been proposed, development of computational tools to integrate results from different methods and user-friendly online tools is still lagging. Results: We developed a web server that efficiently constructs gene networks from expression data. It allows the user to use ten different network construction methods (such as partial correlation-, likelihood-, Bayesian- and mutual information-based methods) and integrates the resulting networks from multiple methods. Hub gene information, if available, can be incorporated to enhance performance. Conclusions: GeNeCK is an efficient and easy-to-use web application for gene regulatory network construction. It can be accessed at http://lce.biohpc.swmed.edu/geneck.

Original languageEnglish (US)
Article number12
JournalBMC Bioinformatics
Volume20
Issue number1
DOIs
StatePublished - Jan 7 2019

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Keywords

  • Bayesian
  • Correlation
  • Ensemble
  • Gene network
  • Gene network
  • Hub gene
  • Likelihood
  • Mutual information
  • Statistical method
  • Visualization
  • Web server

ASJC Scopus subject areas

  • Structural Biology
  • Biochemistry
  • Molecular Biology
  • Computer Science Applications
  • Applied Mathematics

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