{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,27]],"date-time":"2026-02-27T05:51:04Z","timestamp":1772171464655,"version":"3.50.1"},"reference-count":35,"publisher":"Public Library of Science (PLoS)","issue":"6","license":[{"start":{"date-parts":[[2014,6,12]],"date-time":"2014-06-12T00:00:00Z","timestamp":1402531200000},"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.1003659","type":"journal-article","created":{"date-parts":[[2014,6,12]],"date-time":"2014-06-12T18:50:54Z","timestamp":1402599054000},"page":"e1003659","update-policy":"https:\/\/doi.org\/10.1371\/journal.pcbi.corrections_policy","source":"Crossref","is-referenced-by-count":22,"title":["Protein Conservation and Variation Suggest Mechanisms of Cell Type-Specific Modulation of Signaling Pathways"],"prefix":"10.1371","volume":"10","author":[{"given":"Martin H.","family":"Schaefer","sequence":"first","affiliation":[]},{"given":"Jae-Seong","family":"Yang","sequence":"additional","affiliation":[]},{"given":"Luis","family":"Serrano","sequence":"additional","affiliation":[]},{"given":"Christina","family":"Kiel","sequence":"additional","affiliation":[]}],"member":"340","published-online":{"date-parts":[[2014,6,12]]},"reference":[{"key":"ref1","doi-asserted-by":"crossref","first-page":"39","DOI":"10.1038\/nrg977","article-title":"The evolution of signalling pathways in animal development","volume":"4","author":"A Pires-daSilva","year":"2003","journal-title":"Nat Rev Genet"},{"key":"ref2","doi-asserted-by":"crossref","first-page":"2005.0010","DOI":"10.1038\/msb4100014","article-title":"A comprehensive pathway map of epidermal growth factor receptor signaling","volume":"1","author":"K Oda","year":"2005","journal-title":"Mol Syst Biol"},{"key":"ref3","doi-asserted-by":"crossref","first-page":"2006.0015","DOI":"10.1038\/msb4100057","article-title":"A comprehensive map of the toll-like receptor signaling network","volume":"2","author":"K Oda","year":"2006","journal-title":"Mol Syst Biol"},{"key":"ref4","doi-asserted-by":"crossref","first-page":"826","DOI":"10.1038\/nrg1471","article-title":"Biological robustness","volume":"5","author":"H Kitano","year":"2004","journal-title":"Nat Rev Genet"},{"key":"ref5","doi-asserted-by":"crossref","first-page":"446","DOI":"10.1016\/j.tibtech.2004.07.007","article-title":"Bow ties, metabolism and disease","volume":"22","author":"M Csete","year":"2004","journal-title":"Trends Biotechnol"},{"key":"ref6","doi-asserted-by":"crossref","first-page":"260","DOI":"10.1038\/msb.2009.17","article-title":"Tissue specificity and the human protein interaction network","volume":"5","author":"A Bossi","year":"2009","journal-title":"Mol Syst Biol"},{"key":"ref7","doi-asserted-by":"crossref","first-page":"1238016","DOI":"10.1126\/science.1238016","article-title":"Opposite feedbacks in the Hippo pathway for growth control and neural fate","volume":"342","author":"D Jukam","year":"2013","journal-title":"Science"},{"key":"ref8","doi-asserted-by":"crossref","first-page":"565","DOI":"10.1016\/j.cell.2011.08.050","article-title":"Master transcription factors determine cell-type-specific responses to TGF-\u03b2 signaling","volume":"147","author":"AC Mullen","year":"2011","journal-title":"Cell"},{"key":"ref9","doi-asserted-by":"crossref","first-page":"577","DOI":"10.1016\/j.cell.2011.09.044","article-title":"Lineage regulators direct BMP and Wnt pathways to cell-specific programs during differentiation and regeneration","volume":"147","author":"E Trompouki","year":"2011","journal-title":"Cell"},{"key":"ref10","doi-asserted-by":"crossref","first-page":"572","DOI":"10.1016\/j.ejcb.2010.10.004","article-title":"The Notch signaling pathway: molecular basis of cell context dependency","volume":"90","author":"R Schwanbeck","year":"2011","journal-title":"Eur J Cell Biol"},{"key":"ref11","doi-asserted-by":"crossref","first-page":"M111.014050","DOI":"10.1074\/mcp.M111.014050","article-title":"Comparative proteomic analysis of eleven common cell lines reveals ubiquitous but varying expression of most proteins","volume":"11","author":"T Geiger","year":"2012","journal-title":"Mol Cell Proteomics"},{"key":"ref12","doi-asserted-by":"crossref","first-page":"569","DOI":"10.1016\/j.tig.2013.05.010","article-title":"Human housekeeping genes, revisited","volume":"29","author":"E Eisenberg","year":"2013","journal-title":"Trends Genet"},{"key":"ref13","doi-asserted-by":"crossref","first-page":"1709","DOI":"10.1074\/mcp.M112.024919","article-title":"Initial quantitative proteomic map of 28 mouse tissues using the SILAC mouse","volume":"12","author":"T Geiger","year":"2013","journal-title":"Mol Cell Proteomics"},{"key":"ref14","doi-asserted-by":"crossref","first-page":"D691","DOI":"10.1093\/nar\/gkq1018","article-title":"Reactome: a database of reactions, pathways and biological processes","volume":"39","author":"D Croft","year":"2011","journal-title":"Nucleic Acids Res"},{"key":"ref15","doi-asserted-by":"crossref","first-page":"D8","DOI":"10.1093\/nar\/gks1189","article-title":"Database resources of the National Center for Biotechnology Information","volume":"41","year":"2013","journal-title":"Nucleic Acids Res"},{"key":"ref16","doi-asserted-by":"crossref","first-page":"2042","DOI":"10.1093\/bioinformatics\/btq310","article-title":"Uniformly curated signaling pathways reveal tissue-specific cross-talks and support drug target discovery","volume":"26","author":"T Korcsm\u00e1ros","year":"2010","journal-title":"Bioinformatics"},{"key":"ref17","doi-asserted-by":"crossref","first-page":"e31826","DOI":"10.1371\/journal.pone.0031826","article-title":"HIPPIE: Integrating protein interaction networks with experiment based quality scores","volume":"7","author":"MH Schaefer","year":"2012","journal-title":"PLoS One"},{"key":"ref18","doi-asserted-by":"crossref","first-page":"e1002860","DOI":"10.1371\/journal.pcbi.1002860","article-title":"Adding protein context to the human protein-protein interaction network to reveal meaningful interactions","volume":"9","author":"MH Schaefer","year":"2013","journal-title":"PLoS Comput Biol"},{"key":"ref19","doi-asserted-by":"crossref","first-page":"167","DOI":"10.1016\/S1535-6108(03)00216-2","article-title":"Cell signaling and cancer","volume":"4","author":"GS Martin","year":"2003","journal-title":"Cancer Cell"},{"key":"ref20","doi-asserted-by":"crossref","first-page":"1297","DOI":"10.1002\/pmic.200900414","article-title":"Shotgun proteomics data from multiple organisms reveals remarkable quantitative conservation of the eukaryotic core proteome","volume":"10","author":"M Weiss","year":"2010","journal-title":"Proteomics"},{"key":"ref21","doi-asserted-by":"crossref","first-page":"17","DOI":"10.1186\/1752-0509-5-17","article-title":"Initial characterization of the human central proteome","volume":"5","author":"TR Burkard","year":"2011","journal-title":"BMC Syst Biol"},{"key":"ref22","doi-asserted-by":"crossref","first-page":"210","DOI":"10.1016\/j.tig.2005.02.008","article-title":"Modular genes with metazoan-specific domains have increased tissue specificity","volume":"21","author":"I Cohen-Gihon","year":"2005","journal-title":"Trends Genet"},{"key":"ref23","doi-asserted-by":"crossref","first-page":"R56","DOI":"10.1186\/gb-2005-6-7-r56","article-title":"Relationship between the tissue-specificity of mouse gene expression and the evolutionary origin and function of the proteins","volume":"6","author":"S Freilich","year":"2005","journal-title":"Genome Biol"},{"key":"ref24","doi-asserted-by":"crossref","first-page":"154","DOI":"10.1186\/1752-0509-4-154","article-title":"Patterns of human gene expression variance show strong associations with signaling network hierarchy","volume":"4","author":"K Komurov","year":"2010","journal-title":"BMC Syst Biol"},{"key":"ref25","doi-asserted-by":"crossref","first-page":"604","DOI":"10.1038\/nature06001","article-title":"Common effector processing mediates cell-specific responses to stimuli","volume":"448","author":"K Miller-Jensen","year":"2007","journal-title":"Nature"},{"key":"ref26","doi-asserted-by":"crossref","first-page":"ra58","DOI":"10.1126\/scisignal.2003994","article-title":"Receptor tyrosine kinases fall into distinct classes based on their inferred signaling networks","volume":"6","author":"JP Wagner","year":"2013","journal-title":"Sci Signal"},{"key":"ref27","doi-asserted-by":"crossref","first-page":"4323","DOI":"10.1073\/pnas.0701722105","article-title":"Network properties of genes harboring inherited disease mutations","volume":"105","author":"I Feldman","year":"2008","journal-title":"Proc Natl Acad Sci U S A"},{"key":"ref28","doi-asserted-by":"crossref","first-page":"8685","DOI":"10.1073\/pnas.0701361104","article-title":"The human disease network","volume":"104","author":"KI Goh","year":"2007","journal-title":"Proc Natl Acad Sci U S A"},{"key":"ref29","doi-asserted-by":"crossref","first-page":"54","DOI":"10.1101\/gr.1924004","article-title":"Elevated rates of protein secretion, evolution, and disease among tissue-specific genes","volume":"14","author":"EE Winter","year":"2004","journal-title":"Genome Res"},{"key":"ref30","doi-asserted-by":"crossref","first-page":"333","DOI":"10.1038\/nature12634","article-title":"Mutational landscape and significance across 12 major cancer types","volume":"502","author":"C Kandoth","year":"2013","journal-title":"Nature"},{"key":"ref31","doi-asserted-by":"crossref","first-page":"ra38","DOI":"10.1126\/scisignal.2000397","article-title":"Cell type-specific importance of ras-c-raf complex association rate constants for MAPK signaling","volume":"2","author":"C Kiel","year":"2009","journal-title":"Sci Signal"},{"key":"ref32","doi-asserted-by":"crossref","first-page":"1283","DOI":"10.1126\/science.1123061","article-title":"Toward automatic reconstruction of a highly resolved tree of life","volume":"311","author":"FD Ciccarelli","year":"2006","journal-title":"Science"},{"key":"ref33","doi-asserted-by":"crossref","first-page":"D793","DOI":"10.1093\/nar\/gkn665","article-title":"McKusick&apos;s Online Mendelian Inheritance in Man (OMIM)","volume":"37","author":"J Amberger","year":"2009","journal-title":"Nucleic Acids Res"},{"key":"ref34","doi-asserted-by":"crossref","first-page":"D945","DOI":"10.1093\/nar\/gkq929","article-title":"COSMIC: mining complete cancer genomes in the Catalogue of Somatic Mutations in Cancer","volume":"39","author":"SA Forbes","year":"2011","journal-title":"Nucleic Acids Res"},{"key":"ref35","doi-asserted-by":"crossref","first-page":"44","DOI":"10.1038\/nprot.2008.211","article-title":"Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources","volume":"4","author":"DW Huang","year":"2009","journal-title":"Nat Protoc"}],"container-title":["PLoS Computational Biology"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/dx.plos.org\/10.1371\/journal.pcbi.1003659","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,7,14]],"date-time":"2023-07-14T02:58:36Z","timestamp":1689303516000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pcbi.1003659"}},"subtitle":[],"editor":[{"given":"Anand R.","family":"Asthagiri","sequence":"first","affiliation":[]}],"short-title":[],"issued":{"date-parts":[[2014,6,12]]},"references-count":35,"journal-issue":{"issue":"6","published-online":{"date-parts":[[2014,6,12]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pcbi.1003659","relation":{"has-review":[{"id-type":"doi","id":"10.3410\/f.718447170.793499623","asserted-by":"object"}]},"ISSN":["1553-7358"],"issn-type":[{"value":"1553-7358","type":"electronic"}],"subject":[],"published":{"date-parts":[[2014,6,12]]}}}