Inferring the functions of longevity genes with modular subnetwork biomarkers of Caenorhabditis elegans aging.

Genome Biology
Kristen FortneyIgor Jurisica

Abstract

A central goal of biogerontology is to identify robust gene-expression biomarkers of aging. Here we develop a method where the biomarkers are networks of genes selected based on age-dependent activity and a graph-theoretic property called modularity. Tested on Caenorhabditis elegans, our algorithm yields better biomarkers than previous methods - they are more conserved across studies and better predictors of age. We apply these modular biomarkers to assign novel aging-related functions to poorly characterized longevity genes.

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Citations

Jun 22, 2011·Human Genetics·Kristen Fortney, Igor Jurisica
Apr 9, 2013·Bio Systems·Andres Kriete
Sep 21, 2013·Nature Reviews. Genetics·Koyel MitraTrey Ideker
Aug 14, 2013·Proceedings of the National Academy of Sciences of the United States of America·James WestAndrew E Teschendorff
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Oct 7, 2014·Proteomics·Serene W H WongIgor Jurisica
Jan 17, 2014·Biometrical Journal. Biometrische Zeitschrift·Holger Fröhlich
Feb 5, 2014·Biochemical and Biophysical Research Communications·Chiara PastrelloIgor Jurisica
Jan 1, 2012·Biology·Yupeng Cun, Holger Fröhlich
Nov 4, 2015·IEEE/ACM Transactions on Computational Biology and Bioinformatics·Boyoung YooTijana Milenkovic
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Jun 17, 2019·European Journal of Nuclear Medicine and Molecular Imaging·Andreas HolzingerIgor Jurisica
Mar 4, 2021·Aging Cell·David H Meyer, Björn Schumacher
Jul 8, 2017·Methods : a Companion to Methods in Enzymology·Serene W H WongIgor Jurisica

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Software Mentioned

PSI
WormNet
NAViGaTOR
LIBSVM
Matlab
Gene Set Enrichment Analysis
R
MI
topGO

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