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GLITTER: a web-based application for gene link inspection through tissue-specific coexpression.

Xiangtao Liu1, Pengfei Yu2, Chao Cheng3

  • 1Department of Psychiatry, University of Iowa, Iowa City, Iowa, USA.

Scientific Reports
|September 15, 2016
PubMed
Summary
This summary is machine-generated.

Most complex diseases are polygenic, involving many genes. Gene Link Inspector Through Tissue-specific coExpRession (GLITTER) assesses functional gene relatedness using tissue-specific expression, aiding disease etiology research.

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Area of Science:

  • Genetics
  • Bioinformatics
  • Computational Biology

Background:

  • Complex diseases often have a polygenic basis, involving numerous susceptibility genes.
  • Existing methods for assessing gene functional relatedness, like protein-protein interaction networks, lack tissue specificity and are limited to protein-coding genes.
  • Biological knowledge is often incomplete, biasing network analyses.

Purpose of the Study:

  • To introduce Gene Link Inspector Through Tissue-specific coExpRession (GLITTER), a novel web-based application.
  • To assess the functional relatedness of susceptibility genes (coding and noncoding) using tissue-specific gene expression profiles.
  • To identify specific tissues where susceptibility genes may function and provide insights into disease etiology.

Main Methods:

  • Development of GLITTER, a web application utilizing tissue-specific gene expression data.
  • Application of GLITTER to analyze susceptibility genes for complex diseases.
  • Demonstration of GLITTER's utility with case studies for schizophrenia and breast cancer.

Main Results:

  • GLITTER effectively assesses functional relatedness of susceptibility genes based on tissue-specific expression.
  • The tool can identify potential tissue-specific functions of genes implicated in complex diseases.
  • Case studies illustrate GLITTER's ability to offer clues regarding disease etiology.

Conclusions:

  • GLITTER provides a powerful, tissue-aware approach to explore the functional relationships among susceptibility genes.
  • The application enhances understanding of the genetic architecture of complex diseases by considering tissue context.
  • GLITTER aids in uncovering potential etiological mechanisms for diseases like schizophrenia and breast cancer.