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Genomic characterization of perturbation sensitivity

Cited 13 time in Web of Science Cited 14 time in Scopus
Authors
Ohn, Jung Hun; Kim, Jihun; Kim, Ju Han
Issue Date
2007-07-25
Publisher
Oxford University Press
Citation
Bioinformatics, 23(13), i354-i358
Keywords
Chromosome Mapping/*methodsComputer SimulationGene Expression Profiling/*methodsGene Expression Regulation/*physiologyModels, BiologicalOligonucleotide Array Sequence Analysis/*methodsProteome/genetics/*metabolismSensitivity and SpecificitySignal Transduction/*physiologyTranscription Factors/*metabolism
Abstract
MOTIVATION: In determining the function of a gene, it provides much information to observe the changes in a biological system after disruption of the gene of interest through its knockout. Thanks to the microarray technology, it is now possible to profile transcriptional changes of the whole genome, thus differentiating genes that are significantly affected by the knockout. Based on microarray experiments of hundreds of different knockouts, we assigned the so called, 'Perturbation Sensitivity', to the Saccharomyces cerevisiae genome by the frequency of significant changes in the transcript level in hundreds of knockout conditions. Biologically, it reflects the degree of a gene's sensitivity to external perturbations. RESULTS: Through gradually enriching gene sets with more perturbation sensitive genes, we show that perturbation sensitive genes are usually not essential and their coding proteins have fewer physical interaction partners and more transcription factors bind to their upstream sequences. And the two extreme gene groups, perturbation sensitive versus perturbation resistant, have mutually exclusive functional annotations.
ISSN
1460-2059 (Electronic)
Language
English
URI
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=17646317

http://hdl.handle.net/10371/25661
DOI
https://doi.org/10.1093/bioinformatics/btm172
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College of Medicine/School of Medicine (의과대학/대학원)Program in Clinical Pharmacology (협동과정-임상약리학전공)Journal Papers (저널논문_협동과정-임상약리학전공)
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