{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,27]],"date-time":"2026-02-27T06:00:01Z","timestamp":1772172001608,"version":"3.50.1"},"reference-count":24,"publisher":"Public Library of Science (PLoS)","issue":"10","license":[{"start":{"date-parts":[[2017,10,12]],"date-time":"2017-10-12T00:00:00Z","timestamp":1507766400000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100009224","name":"Advanced Research Projects Agency","doi-asserted-by":"publisher","award":["W911-NF-14-1-0397"],"award-info":[{"award-number":["W911-NF-14-1-0397"]}],"id":[{"id":"10.13039\/100009224","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000054","name":"National Cancer Institute","doi-asserted-by":"publisher","award":["CA-184427F"],"award-info":[{"award-number":["CA-184427F"]}],"id":[{"id":"10.13039\/100000054","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000057","name":"National Institute of General Medical Sciences","doi-asserted-by":"publisher","award":["GM070743"],"award-info":[{"award-number":["GM070743"]}],"id":[{"id":"10.13039\/100000057","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["www.ploscompbiol.org"],"crossmark-restriction":false},"short-container-title":["PLoS Comput Biol"],"DOI":"10.1371\/journal.pcbi.1005598","type":"journal-article","created":{"date-parts":[[2017,10,12]],"date-time":"2017-10-12T13:41:04Z","timestamp":1507815664000},"page":"e1005598","update-policy":"https:\/\/doi.org\/10.1371\/journal.pcbi.corrections_policy","source":"Crossref","is-referenced-by-count":75,"title":["Network propagation in the cytoscape cyberinfrastructure"],"prefix":"10.1371","volume":"13","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-5075-9486","authenticated-orcid":true,"given":"Daniel E.","family":"Carlin","sequence":"first","affiliation":[]},{"given":"Barry","family":"Demchak","sequence":"additional","affiliation":[]},{"given":"Dexter","family":"Pratt","sequence":"additional","affiliation":[]},{"given":"Eric","family":"Sage","sequence":"additional","affiliation":[]},{"given":"Trey","family":"Ideker","sequence":"additional","affiliation":[]}],"member":"340","published-online":{"date-parts":[[2017,10,12]]},"reference":[{"key":"ref1","doi-asserted-by":"crossref","first-page":"949","DOI":"10.1016\/j.ajhg.2008.02.013","article-title":"Walking the interactome for prioritization of candidate disease genes","volume":"82","author":"S K\u00f6hler","year":"2008","journal-title":"Am J Hum Genet"},{"key":"ref2","doi-asserted-by":"crossref","first-page":"e1000641","DOI":"10.1371\/journal.pcbi.1000641","article-title":"Associating Genes and Protein Complexes with Disease via Network Propagation","volume":"6","author":"O Vanunu","year":"2010","journal-title":"PLoS Comput Biol"},{"key":"ref3","doi-asserted-by":"crossref","first-page":"S6","DOI":"10.1186\/1752-0509-8-S1-S6","article-title":"Identifying disease associated genes by network propagation","volume":"8","author":"Y Qian","year":"2014","journal-title":"BMC Syst Biol"},{"key":"ref4","doi-asserted-by":"crossref","first-page":"1109","DOI":"10.1101\/gr.118992.110","article-title":"Prioritizing candidate disease genes by network-based boosting of genome-wide association data","volume":"21","author":"I Lee","year":"2011","journal-title":"Genome Res"},{"key":"ref5","doi-asserted-by":"crossref","first-page":"507","DOI":"10.1089\/cmb.2010.0265","article-title":"Algorithms for detecting significantly mutated pathways in cancer","volume":"18","author":"F Vandin","year":"2011","journal-title":"J Comput Biol"},{"key":"ref6","doi-asserted-by":"crossref","first-page":"1108","DOI":"10.1038\/nmeth.2651","article-title":"Network-based stratification of tumor mutations","volume":"10","author":"M Hofree","year":"2013","journal-title":"Nat Methods"},{"key":"ref7","doi-asserted-by":"crossref","first-page":"2757","DOI":"10.1093\/bioinformatics\/btt471","article-title":"Discovering causal pathways linking genomic events to transcriptional states using Tied Diffusion Through Interacting Events (TieDIE)","volume":"29","author":"EO Paull","year":"2013","journal-title":"Bioinformatics"},{"key":"ref8","doi-asserted-by":"crossref","first-page":"503","DOI":"10.1186\/s12864-015-1687-x","article-title":"Tumor characterization and stratification by integrated molecular profiles reveals essential pan-cancer features","volume":"16","author":"Z Liu","year":"2015","journal-title":"BMC Genomics"},{"key":"ref9","doi-asserted-by":"crossref","first-page":"S7","DOI":"10.1186\/1471-2164-16-S7-S7","article-title":"Network-based stratification analysis of 13 major cancer types using mutations in panels of cancer genes","volume":"16","author":"X Zhong","year":"2015","journal-title":"BMC Genomics"},{"key":"ref10","doi-asserted-by":"crossref","first-page":"431","DOI":"10.1093\/bioinformatics\/btq675","article-title":"Cytoscape 2.8: new features for data integration and network visualization","volume":"27","author":"ME Smoot","year":"2011","journal-title":"Bioinformatics"},{"key":"ref11","doi-asserted-by":"crossref","first-page":"2927","DOI":"10.1093\/bioinformatics\/btq562","article-title":"GeneMANIA Cytoscape plugin: fast gene function predictions on the desktop","volume":"26","author":"J Montojo","year":"2010","journal-title":"Bioinformatics"},{"key":"ref12","author":"RT Fielding","year":"2000"},{"key":"ref13","unstructured":"Fowler M, Lewis J. Microservices. Viittattu. 2014;"},{"key":"ref14","doi-asserted-by":"crossref","first-page":"488","DOI":"10.1137\/100788860","article-title":"Computing the Action of the Matrix Exponential, with an Application to Exponential Integrators","volume":"33","author":"AH Al-Mohy","year":"2011","journal-title":"SIAM J Sci Comput"},{"key":"ref15","unstructured":"Jones E, Oliphant T, Peterson P, Others. SciPy: Open source scientific tools for Python, 2001. URL <ext-link xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" ext-link-type=\"uri\" xlink:href=\"http:\/\/www.scipy.org\" xlink:type=\"simple\">http:\/\/www.scipy.org<\/ext-link>. 2015;73: 86."},{"key":"ref16","doi-asserted-by":"crossref","first-page":"118","DOI":"10.1038\/nature13121","article-title":"Reversible and adaptive resistance to BRAF(V600E) inhibition in melanoma","volume":"508","author":"C Sun","year":"2014","journal-title":"Nature"},{"key":"ref17","first-page":"433","article-title":"Novel mechanisms of resistance to vemurafenib in melanoma\u2014V600E B-Raf reversion and switching VEGF-A splice isoform expression","volume":"5","author":"N Beazley-Long","year":"2015","journal-title":"Am J Cancer Res"},{"key":"ref18","doi-asserted-by":"crossref","first-page":"500","DOI":"10.1038\/nature11183","article-title":"Tumour micro-environment elicits innate resistance to RAF inhibitors through HGF secretion","volume":"487","author":"R Straussman","year":"2012","journal-title":"Nature"},{"key":"ref19","doi-asserted-by":"crossref","first-page":"973","DOI":"10.1038\/nature09626","article-title":"Melanomas acquire resistance to B-RAF(V600E) inhibition by RTK or N-RAS upregulation","volume":"468","author":"R Nazarian","year":"2010","journal-title":"Nature"},{"key":"ref20","doi-asserted-by":"crossref","first-page":"505","DOI":"10.1038\/nature11249","article-title":"Widespread potential for growth-factor-driven resistance to anticancer kinase inhibitors","volume":"487","author":"TR Wilson","year":"2012","journal-title":"Nature"},{"key":"ref21","doi-asserted-by":"crossref","first-page":"D674","DOI":"10.1093\/nar\/gkn653","article-title":"PID: the Pathway Interaction Database","volume":"37","author":"CF Schaefer","year":"2009","journal-title":"Nucleic Acids Res"},{"key":"ref22","doi-asserted-by":"crossref","first-page":"603","DOI":"10.1038\/nature11003","article-title":"The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity","volume":"483","author":"J Barretina","year":"2012","journal-title":"Nature"},{"key":"ref23","doi-asserted-by":"crossref","first-page":"1041","DOI":"10.1016\/j.cell.2016.07.007","article-title":"Phosphoproteome Integration Reveals Patient-Specific Networks in Prostate Cancer","volume":"166","author":"JM Drake","year":"2016","journal-title":"Cell"},{"key":"ref24","doi-asserted-by":"crossref","first-page":"10206","DOI":"10.18632\/oncotarget.2602","article-title":"Overcoming resistance to BRAF inhibition in BRAF-mutated metastatic melanoma","volume":"5","author":"F Spagnolo","year":"2014","journal-title":"Oncotarget"}],"container-title":["PLOS Computational Biology"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/dx.plos.org\/10.1371\/journal.pcbi.1005598","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2018,10,19]],"date-time":"2018-10-19T15:26:49Z","timestamp":1539962809000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pcbi.1005598"}},"subtitle":[],"editor":[{"given":"Xianghong Jasmine","family":"Zhou","sequence":"first","affiliation":[]}],"short-title":[],"issued":{"date-parts":[[2017,10,12]]},"references-count":24,"journal-issue":{"issue":"10","published-online":{"date-parts":[[2017,10,12]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pcbi.1005598","relation":{"has-review":[{"id-type":"doi","id":"10.3410\/f.731979442.793540819","asserted-by":"object"}]},"ISSN":["1553-7358"],"issn-type":[{"value":"1553-7358","type":"electronic"}],"subject":[],"published":{"date-parts":[[2017,10,12]]}}}