{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,27]],"date-time":"2026-02-27T05:46:20Z","timestamp":1772171180398,"version":"3.50.1"},"reference-count":38,"publisher":"Public Library of Science (PLoS)","issue":"5","license":[{"start":{"date-parts":[[2011,5,12]],"date-time":"2011-05-12T00:00:00Z","timestamp":1305158400000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["www.ploscompbiol.org"],"crossmark-restriction":false},"short-container-title":["PLoS Comput Biol"],"DOI":"10.1371\/journal.pcbi.1002048","type":"journal-article","created":{"date-parts":[[2011,5,12]],"date-time":"2011-05-12T16:23:31Z","timestamp":1305217411000},"page":"e1002048","update-policy":"https:\/\/doi.org\/10.1371\/journal.pcbi.corrections_policy","source":"Crossref","is-referenced-by-count":14,"title":["Quantitative Epistasis Analysis and Pathway Inference from Genetic Interaction Data"],"prefix":"10.1371","volume":"7","author":[{"given":"Hilary","family":"Phenix","sequence":"first","affiliation":[]},{"given":"Katy","family":"Morin","sequence":"additional","affiliation":[]},{"given":"Cory","family":"Batenchuk","sequence":"additional","affiliation":[]},{"given":"Jacob","family":"Parker","sequence":"additional","affiliation":[]},{"given":"Vida","family":"Abedi","sequence":"additional","affiliation":[]},{"given":"Liu","family":"Yang","sequence":"additional","affiliation":[]},{"given":"Lioudmila","family":"Tepliakova","sequence":"additional","affiliation":[]},{"given":"Theodore J.","family":"Perkins","sequence":"additional","affiliation":[]},{"given":"Mads","family":"K\u00e6rn","sequence":"additional","affiliation":[]}],"member":"340","published-online":{"date-parts":[[2011,5,12]]},"reference":[{"key":"ref1","doi-asserted-by":"crossref","first-page":"2463","DOI":"10.1093\/hmg\/11.20.2463","article-title":"Epistasis: what it means, what it doesn&apos;t mean, and statistical methods to detect it in humans.","volume":"11","author":"HJ Cordell","year":"2002","journal-title":"Hum Mol Genet"},{"key":"ref2","doi-asserted-by":"crossref","DOI":"10.1895\/wormbook.1.88.2","article-title":"Genetic dissection of developmental pathways.","author":"LS Huang","year":"2006"},{"key":"ref3","doi-asserted-by":"crossref","first-page":"2364","DOI":"10.1126\/science.1065810","article-title":"Systematic genetic analysis with ordered arrays of yeast deletion mutants.","volume":"294","author":"AH Tong","year":"2001","journal-title":"Science"},{"key":"ref4","doi-asserted-by":"crossref","first-page":"369","DOI":"10.1016\/S0580-9517(06)36016-3","article-title":"High-throughput strain construction and systematic synthetic lethal screening in Saccharomyces cerevisiae.","volume":"36","author":"AHY Tong","year":"2007","journal-title":"Method Microbiol"},{"key":"ref5","doi-asserted-by":"crossref","first-page":"711","DOI":"10.1038\/nmeth.1234","article-title":"A comprehensive strategy enabling high-resolution functional analysis of the yeast genome.","volume":"5","author":"DK Breslow","year":"2008","journal-title":"Nat Methods"},{"key":"ref6","doi-asserted-by":"crossref","first-page":"272","DOI":"10.1038\/ng.524","article-title":"Prevalent positive epistasis in Escherichia coli and Saccharomyces cerevisiae metabolic networks.","volume":"42","author":"X He","year":"2010","journal-title":"Nat Genet"},{"key":"ref7","doi-asserted-by":"crossref","first-page":"379","DOI":"10.1038\/msb.2010.27","article-title":"Automated identification of pathways from quantitative genetic interaction data.","volume":"6","author":"A Battle","year":"2010","journal-title":"Mol Syst Biol"},{"key":"ref8","doi-asserted-by":"crossref","first-page":"312","DOI":"10.1016\/0168-9525(92)90263-4","article-title":"Ordering gene function: the interpretation of epistasis in regulatory hierarchies.","volume":"8","author":"L Avery","year":"1992","journal-title":"Trends Genet"},{"key":"ref9","doi-asserted-by":"crossref","first-page":"1167","DOI":"10.1093\/genetics\/149.3.1167","article-title":"The language of gene interaction.","volume":"149","author":"PC Phillips","year":"1998","journal-title":"Genetics"},{"key":"ref10","doi-asserted-by":"crossref","first-page":"35","DOI":"10.1186\/jbiol144","article-title":"Q&amp;A: epistasis.","volume":"8","author":"FP Roth","year":"2009","journal-title":"J Biol"},{"key":"ref11","doi-asserted-by":"crossref","first-page":"e1000029","DOI":"10.1371\/journal.pgen.1000029","article-title":"From classical genetics to quantitative genetics to systems biology: modeling epistasis.","volume":"4","author":"DL Aylor","year":"2008","journal-title":"PLoS Genet"},{"key":"ref12","doi-asserted-by":"crossref","first-page":"507","DOI":"10.1016\/j.cell.2005.08.031","article-title":"Exploration of the function and organization of the yeast early secretory pathway through an epistatic miniarray profile.","volume":"123","author":"M Schuldiner","year":"2005","journal-title":"Cell"},{"key":"ref13","doi-asserted-by":"crossref","first-page":"806","DOI":"10.1038\/nature05649","article-title":"Functional dissection of protein complexes involved in yeast chromosome biology using a genetic interaction map.","volume":"446","author":"SR Collins","year":"2007","journal-title":"Nature"},{"key":"ref14","doi-asserted-by":"crossref","first-page":"199","DOI":"10.1038\/ng1948","article-title":"Systematic pathway analysis using high-resolution fitness profiling of combinatorial gene deletions.","volume":"39","author":"RP St Onge","year":"2007","journal-title":"Nat Genet"},{"key":"ref15","doi-asserted-by":"crossref","first-page":"425","DOI":"10.1126\/science.1180823","article-title":"The genetic landscape of a cell.","volume":"327","author":"M Costanzo","year":"2010","journal-title":"Science"},{"key":"ref16","doi-asserted-by":"crossref","first-page":"471","DOI":"10.1038\/ng1545","article-title":"Epistasis analysis with global transcriptional phenotypes.","volume":"37","author":"N Van Driessche","year":"2005","journal-title":"Nat Genet"},{"key":"ref17","doi-asserted-by":"crossref","first-page":"96","DOI":"10.1038\/msb4100137","article-title":"Prediction of phenotype and gene expression for combinations of mutations.","volume":"3","author":"GW Carter","year":"2007","journal-title":"Mol Syst Biol"},{"key":"ref18","doi-asserted-by":"crossref","first-page":"1300","DOI":"10.1038\/ng.235","article-title":"Structure and function of a transcriptional network activated by the MAPK Hog1.","volume":"40","author":"AP Capaldi","year":"2008","journal-title":"Nat Genet"},{"key":"ref19","doi-asserted-by":"crossref","first-page":"1693","DOI":"10.1126\/science.1167983","article-title":"Comprehensive characterization of genes required for protein folding in the endoplasmic reticulum.","volume":"323","author":"MC Jonikas","year":"2009","journal-title":"Science"},{"key":"ref20","doi-asserted-by":"crossref","first-page":"457","DOI":"10.1038\/ng0505-457","article-title":"Universal epistasis analysis.","volume":"37","author":"TR Hughes","year":"2005","journal-title":"Nat Genet"},{"key":"ref21","doi-asserted-by":"crossref","first-page":"315","DOI":"10.1038\/hdy.1992.131","article-title":"A simple regression method for mapping quantitative trait loci in line crosses using flanking markers.","volume":"69","author":"CS Haley","year":"1992","journal-title":"Heredity"},{"key":"ref22","doi-asserted-by":"crossref","first-page":"3461","DOI":"10.1073\/pnas.0712255105","article-title":"Defining genetic interaction.","volume":"105","author":"R Mani","year":"2008","journal-title":"Proc Natl Acad Sci U S A"},{"key":"ref23","doi-asserted-by":"crossref","first-page":"493","DOI":"10.1186\/1471-2164-11-493","article-title":"Identification of response-modulated genetic interactions by sensitivity-based epistatic analysis.","volume":"11","author":"C Batenchuk","year":"2010","journal-title":"BMC Genomics"},{"key":"ref24","doi-asserted-by":"crossref","first-page":"1385","DOI":"10.1126\/science.1195618","article-title":"Rewiring of genetic networks in response to DNA damage.","volume":"330","author":"S Bandyopadhyay","year":"2010","journal-title":"Science"},{"key":"ref25","doi-asserted-by":"crossref","first-page":"30350","DOI":"10.1074\/jbc.272.48.30350","article-title":"The cysteine-peptidase bleomycin hydrolase is a member of the galactose regulon in yeast.","volume":"272","author":"W Zheng","year":"1997","journal-title":"J Biol Chem"},{"key":"ref26","doi-asserted-by":"crossref","first-page":"929","DOI":"10.1126\/science.292.5518.929","article-title":"Integrated genomic and proteomic analyses of a systematically perturbed metabolic network.","volume":"292","author":"T Ideker","year":"2001","journal-title":"Science"},{"key":"ref27","doi-asserted-by":"crossref","first-page":"160","DOI":"10.1016\/j.ymgme.2007.09.012","article-title":"Distinct roles of galactose-1P in galactose-mediated growth arrest of yeast deficient in galactose-1P uridylyltransferase (GALT) and UDP-galactose 4\u2032-epimerase (GALE).","volume":"93","author":"JO Mumma","year":"2008","journal-title":"Mol Genet Metab"},{"key":"ref28","doi-asserted-by":"crossref","first-page":"334","DOI":"10.1128\/MMBR.62.2.334-361.1998","article-title":"Yeast carbon catabolite repression.","volume":"62","author":"JM Gancedo","year":"1998","journal-title":"Microbiol Mol Biol Rev"},{"key":"ref29","doi-asserted-by":"crossref","first-page":"131","DOI":"10.1137\/0201008","article-title":"The transitive reduction of a directed graph.","volume":"1","author":"AV Aho","year":"1972","journal-title":"SIAM J Comput"},{"key":"ref30","doi-asserted-by":"crossref","first-page":"317","DOI":"10.1002\/bit.21890","article-title":"The roles of galactitol, galactose-1-phosphate, and phosphoglucomutase in galactose-induced toxicity in Saccharomyces cerevisiae.","volume":"101","author":"WA de Jongh","year":"2008","journal-title":"Biotechnol Bioeng"},{"key":"ref31","doi-asserted-by":"crossref","first-page":"520","DOI":"10.1111\/j.1432-1033.1995.520_2.x","article-title":"Genetic and biochemical characterization of the UGP1 gene encoding the UDP-glucose pyrophosphorylase from Saccharomyces cerevisiae.","volume":"233","author":"JM Daran","year":"1995","journal-title":"Eur J Biochem"},{"key":"ref32","doi-asserted-by":"crossref","first-page":"392","DOI":"10.1006\/bbrc.2000.2629","article-title":"Overexpression of human UDP-glucose pyrophosphorylase rescues galactose-1-phosphate uridyltransferase-deficient yeast.","volume":"271","author":"K Lai","year":"2000","journal-title":"Biochem Biophys Res Commun"},{"key":"ref33","doi-asserted-by":"crossref","first-page":"1366","DOI":"10.1016\/j.cell.2009.12.001","article-title":"Growth rate-dependent global effects on gene expression in bacteria.","volume":"139","author":"S Klumpp","year":"2009","journal-title":"Cell"},{"key":"ref34","doi-asserted-by":"crossref","first-page":"808","DOI":"10.1126\/science.1091317","article-title":"Global mapping of the yeast genetic interaction network.","volume":"303","author":"AH Tong","year":"2004","journal-title":"Science"},{"key":"ref35","doi-asserted-by":"crossref","first-page":"12182","DOI":"10.1073\/pnas.220392197","article-title":"Discovering functional relationships between RNA expression and chemotherapeutic susceptibility using relevance networks.","volume":"97","author":"AJ Butte","year":"2000","journal-title":"Proc Natl Acad Sci U S A"},{"key":"ref36","doi-asserted-by":"crossref","first-page":"S7","DOI":"10.1186\/1471-2105-7-S1-S7","article-title":"ARACNE: an algorithm for the reconstruction of gene regulatory networks in a mammalian cellular context.","volume":"7","author":"A Margolin","year":"2006","journal-title":"BMC Bioinformatics"},{"key":"ref37","article-title":"Methods in yeast genetics: a Cold Spring Harbor Laboratory course manual.","author":"D Burke","year":"2000"},{"key":"ref38","doi-asserted-by":"crossref","first-page":"953","DOI":"10.1002\/(SICI)1097-0061(199807)14:10<953::AID-YEA293>3.0.CO;2-U","article-title":"Additional modules for versatile and economical PCR-based gene deletion and modification in Saccharomyces cerevisiae.","volume":"14","author":"MS Longtine","year":"1998","journal-title":"Yeast"}],"container-title":["PLoS Computational Biology"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/dx.plos.org\/10.1371\/journal.pcbi.1002048","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2021,11,23]],"date-time":"2021-11-23T00:09:52Z","timestamp":1637626192000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pcbi.1002048"}},"subtitle":[],"editor":[{"given":"Uwe","family":"Ohler","sequence":"first","affiliation":[]}],"short-title":[],"issued":{"date-parts":[[2011,5,12]]},"references-count":38,"journal-issue":{"issue":"5","published-online":{"date-parts":[[2011,5,12]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pcbi.1002048","relation":{"has-review":[{"id-type":"doi","id":"10.3410\/f.11414978.12453055","asserted-by":"object"}]},"ISSN":["1553-7358"],"issn-type":[{"value":"1553-7358","type":"electronic"}],"subject":[],"published":{"date-parts":[[2011,5,12]]}}}