Evolutionary conservation and network structure characterize genes of phenotypic relevance for mitosis in human.

PloS One
Marek OstaszewskiAntonio del Sol

Abstract

The impact of gene silencing on cellular phenotypes is difficult to establish due to the complexity of interactions in the associated biological processes and pathways. A recent genome-wide RNA knock-down study both identified and phenotypically characterized a set of important genes for the cell cycle in HeLa cells. Here, we combine a molecular interaction network analysis, based on physical and functional protein interactions, in conjunction with evolutionary information, to elucidate the common biological and topological properties of these key genes. Our results show that these genes tend to be conserved with their corresponding protein interactions across several species and are key constituents of the evolutionary conserved molecular interaction network. Moreover, a group of bistable network motifs is found to be conserved within this network, which are likely to influence the network stability and therefore the robustness of cellular functioning. They form a cluster, which displays functional homogeneity and is significantly enriched in genes phenotypically relevant for mitosis. Additional results reveal a relationship between specific cellular processes and the phenotypic outcomes induced by gene silencing. This study i...Continue Reading

References

Jun 12, 1998·Nature·D J Watts, S H Strogatz
Dec 1, 2000·Nature·B VogelsteinA J Levine
Dec 2, 2000·Reproduction, Fertility, and Development·Q Y SunH Schatten
Dec 26, 2001·Nucleic Acids Research·Minoru KanehisaAkihiro Nakaya
Apr 23, 2002·Nature Genetics·Shai S Shen-OrrUri Alon
Apr 27, 2002·Science·Hunter B FraserMarcus W Feldman
Jun 12, 2002·Molecular Biology of the Cell·Michael L WhitfieldDavid Botstein
Jun 24, 2003·Nature Genetics·Gavin C Conant, Andreas Wagner
Aug 26, 2003·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Christopher James LangmeadBruce Randall Donald
Nov 5, 2003·Proceedings of the National Academy of Sciences of the United States of America·Veronica F HinmanEric H Davidson
Jan 22, 2004·Bioinformatics·Emmanuel ParadisKorbinian Strimmer
Jun 25, 2004·Nucleic Acids Research·Brian P KelleyTrey Ideker
Jul 13, 2004·Bioinformatics·István Albert, Réka Albert
Sep 17, 2004·Nature·Nicholas M LuscombeMark Gerstein
Sep 21, 2004·Nature Genetics·Bernardo LemosDaniel L Hartl
Oct 6, 2004·Genome Biology·Robert C GentlemanJianhua Zhang
Feb 3, 2005·Proceedings of the National Academy of Sciences of the United States of America·Roded SharanTrey Ideker
Apr 20, 2005·Oncogene·Sandra L Harris, Arnold J Levine
Sep 29, 2005·PLoS Biology·Robert J PrillAndre Levchenko
Oct 7, 2005·PLoS Biology·Joshua Lederberg, Emil C Gotschlich
Nov 1, 2005·Cell Cycle·Florian BassermannJustus Duyster
Feb 4, 2006·Bioinformatics·Sebastian Wernicke, Florian Rasche
Mar 15, 2006·The International Journal of Biochemistry & Cell Biology·José Javier Martín de LlanoErwin Knecht
May 15, 2007·Molecular Biology of the Cell·Hanhui Ma, Thoru Pederson
Aug 3, 2007·Cell Cycle·Ulrik de LichtenbergLars Juhl Jensen
Aug 29, 2007·The Journal of Experimental Medicine·Dale A MouldingAdrian J Thrasher
Oct 24, 2007·Journal of Theoretical Biology·Mohsen Sabouri-GhomiJohn J Tyson
Jun 17, 2008·Nature·Liam J HoltDavid O Morgan
Jul 18, 2008·Nature·Silvia D M Santos, James E Ferrell
Jul 18, 2008·Nature·Jan M SkotheimFrederick R Cross

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Citations

Sep 6, 2013·Journal of the Royal Society, Interface·Rick QuaxPeter M A Sloot

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Methods Mentioned

BETA
gene knock-down

Software Mentioned

HomoloGene
Reactome
biomaRt
FuncAssociate
KEGG
Fanmod
Ensembl
KEGGSOAP
Bioconductor

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