Multi-knockout genetic network analysis: The Rad6 example

Alon Kaufman*, Martin Kupiec, Eytan Ruppin

*Corresponding author for this work

Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

Abstract

A novel and rigorous Multi-perturbation Shopley Value Analysis (MSA) method has been recently presented [12]. The method addresses the challenge of defining and calculating the functional causal contributions of elements of a biological system. This paper presents the first study applying MSA to the analysis of gene knockout data. The MSA identifies the importance of genes in the Rad6 DNA repair pathway of the yeast S. cerevisiae, quantifying their contributions and characterizing their functional interactions. Incorporating additional biological knowledge, a new functional description of the Rad6 pathway is provided, predicting the existence of additional DNA polymerase and RFC-like complexes. The MSA is the first method for rigorously analyzing multi-knockout experiments, which are likely to soon become a standard and necessary tool for analyzing complex biological systems.

Original languageEnglish
Title of host publicationProceedings - 2004 IEEE Computational Systems Bioinformatics Conference, CSB 2004
PublisherIEEE Computer Society
Pages332-340
Number of pages9
ISBN (Print)0769521940, 9780769521947
DOIs
StatePublished - 2004
EventProceedings - 2004 IEEE Computational Systems Bioinformatics Conference, CSB 2004 - Stanford, CA, United States
Duration: 16 Aug 200419 Aug 2004

Publication series

NameProceedings - 2004 IEEE Computational Systems Bioinformatics Conference, CSB 2004

Conference

ConferenceProceedings - 2004 IEEE Computational Systems Bioinformatics Conference, CSB 2004
Country/TerritoryUnited States
CityStanford, CA
Period16/08/0419/08/04

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