{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,12,31]],"date-time":"2025-12-31T10:20:35Z","timestamp":1767176435463,"version":"build-2238731810"},"update-to":[{"DOI":"10.1371\/journal.pcbi.1005816","type":"new_version","label":"New version","source":"publisher","updated":{"date-parts":[[2017,11,2]],"date-time":"2017-11-02T00:00:00Z","timestamp":1509580800000}}],"reference-count":53,"publisher":"Public Library of Science (PLoS)","issue":"10","license":[{"start":{"date-parts":[[2017,10,23]],"date-time":"2017-10-23T00:00:00Z","timestamp":1508716800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"European Union's Seventh Framework Programme","award":["115439"],"award-info":[{"award-number":["115439"]}]},{"DOI":"10.13039\/501100000265","name":"Medical Research Council","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100000265","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Naomi Berrie Fellow (Diabete Research)"}],"content-domain":{"domain":["www.ploscompbiol.org"],"crossmark-restriction":false},"short-container-title":["PLoS Comput Biol"],"DOI":"10.1371\/journal.pcbi.1005816","type":"journal-article","created":{"date-parts":[[2017,10,23]],"date-time":"2017-10-23T13:36:39Z","timestamp":1508765799000},"page":"e1005816","update-policy":"https:\/\/doi.org\/10.1371\/journal.pcbi.corrections_policy","source":"Crossref","is-referenced-by-count":15,"title":["Diverse type 2 diabetes genetic risk factors functionally converge in a phenotype-focused gene network"],"prefix":"10.1371","volume":"13","author":[{"given":"Cynthia","family":"Sandor","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4964-7150","authenticated-orcid":true,"given":"Nicola L.","family":"Beer","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8063-7674","authenticated-orcid":true,"given":"Caleb","family":"Webber","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"340","published-online":{"date-parts":[[2017,10,23]]},"reference":[{"issue":"7398","key":"ref1","doi-asserted-by":"crossref","first-page":"S2","DOI":"10.1038\/485S2a","article-title":"Diabetes in numbers","volume":"485","author":"T Scully","year":"2012","journal-title":"Nature"},{"issue":"1","key":"ref2","doi-asserted-by":"crossref","first-page":"67","DOI":"10.1038\/ng.1019","article-title":"Meta-analysis of genome-wide association studies identifies eight new loci for type 2 diabetes in east Asians","volume":"44","author":"YS Cho","year":"2012","journal-title":"Nat Genet"},{"issue":"10","key":"ref3","doi-asserted-by":"crossref","first-page":"984","DOI":"10.1038\/ng.921","article-title":"Genome-wide association study in individuals of South Asian ancestry identifies six new type 2 diabetes susceptibility loci","volume":"43","author":"JS Kooner","year":"2011","journal-title":"Nat Genet"},{"issue":"9","key":"ref4","doi-asserted-by":"crossref","first-page":"981","DOI":"10.1038\/ng.2383","article-title":"Large-scale association analysis provides insights into the genetic architecture and pathophysiology of type 2 diabetes","volume":"44","author":"AP Morris","year":"2012","journal-title":"Nat Genet"},{"issue":"3","key":"ref5","doi-asserted-by":"crossref","first-page":"234","DOI":"10.1038\/ng.2897","article-title":"Genome-wide trans-ancestry meta-analysis provides insight into the genetic architecture of type 2 diabetes susceptibility","volume":"46","author":"DIG Replication","year":"2014","journal-title":"Nat Genet"},{"issue":"4","key":"ref6","doi-asserted-by":"crossref","first-page":"357","DOI":"10.1038\/ng.2915","article-title":"Loss-of-function mutations in SLC30A8 protect against type 2 diabetes","volume":"46","author":"J Flannick","year":"2014","journal-title":"Nat Genet"},{"issue":"3","key":"ref7","doi-asserted-by":"crossref","first-page":"294","DOI":"10.1038\/ng.2882","article-title":"Identification of low-frequency and rare sequence variants associated with elevated or reduced risk of type 2 diabetes","volume":"46","author":"V Steinthorsdottir","year":"2014","journal-title":"Nat Genet"},{"key":"ref8","article-title":"The genetic architecture of type 2 diabetes","author":"C Fuchsberger","year":"2016","journal-title":"Nature"},{"issue":"2","key":"ref9","doi-asserted-by":"crossref","first-page":"136","DOI":"10.1038\/ng.2870","article-title":"Pancreatic islet enhancer clusters enriched in type 2 diabetes risk-associated variants","volume":"46","author":"L Pasquali","year":"2014","journal-title":"Nat Genet"},{"issue":"8","key":"ref10","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pgen.1001058","article-title":"Common inherited variation in mitochondrial genes is not enriched for associations with type 2 diabetes or related glycemic traits","volume":"6","author":"AV Segre","year":"2010","journal-title":"PLoS Genet"},{"issue":"1","key":"ref11","doi-asserted-by":"crossref","first-page":"e1001273","DOI":"10.1371\/journal.pgen.1001273","article-title":"Proteins encoded in genomic regions associated with immune-mediated disease physically interact and suggest underlying biology","volume":"7","author":"EJ Rossin","year":"2011","journal-title":"PLoS Genet"},{"issue":"25","key":"ref12","doi-asserted-by":"crossref","first-page":"14863","DOI":"10.1073\/pnas.95.25.14863","article-title":"Cluster analysis and display of genome-wide expression patterns","volume":"95","author":"MB Eisen","year":"1998","journal-title":"Proc Natl Acad Sci U S A"},{"issue":"8","key":"ref13","doi-asserted-by":"crossref","first-page":"e1003815","DOI":"10.1371\/journal.pcbi.1003815","article-title":"Unbiased functional clustering of gene variants with a phenotypic-linkage network","volume":"10","author":"F Honti","year":"2014","journal-title":"PLoS Comput Biol"},{"issue":"4","key":"ref14","doi-asserted-by":"crossref","first-page":"e1004268","DOI":"10.1371\/journal.pgen.1004268","article-title":"Phenotype ontologies and cross-species analysis for translational research","volume":"10","author":"PN Robinson","year":"2014","journal-title":"PLoS Genet"},{"issue":"Suppl 1","key":"ref15","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":"AA Margolin","year":"2006","journal-title":"BMC Bioinformatics"},{"issue":"5","key":"ref16","doi-asserted-by":"crossref","first-page":"e31","DOI":"10.1093\/nar\/gku1315","article-title":"Conditional mutual inclusive information enables accurate quantification of associations in gene regulatory networks","volume":"43","author":"X Zhang","year":"2015","journal-title":"Nucleic Acids Res"},{"issue":"18","key":"ref17","doi-asserted-by":"crossref","first-page":"5130","DOI":"10.1073\/pnas.1522586113","article-title":"Part mutual information for quantifying direct associations in networks","volume":"113","author":"J Zhao","year":"2016","journal-title":"Proc Natl Acad Sci U S A"},{"issue":"6","key":"ref18","doi-asserted-by":"crossref","first-page":"569","DOI":"10.1038\/ng.3259","article-title":"Understanding multicellular function and disease with human tissue-specific networks","volume":"47","author":"CS Greene","year":"2015","journal-title":"Nat Genet"},{"issue":"5","key":"ref19","doi-asserted-by":"crossref","first-page":"752","DOI":"10.1111\/j.1526-4610.2011.01892.x","article-title":"One hundred years of migraine research: major clinical and scientific observations from 1910 to 2010","volume":"51","author":"PC Tfelt-Hansen","year":"2011","journal-title":"Headache"},{"issue":"9922","key":"ref20","doi-asserted-by":"crossref","first-page":"1068","DOI":"10.1016\/S0140-6736(13)62154-6","article-title":"Pathophysiology and treatment of type 2 diabetes: perspectives on the past, present, and future","volume":"383","author":"SE Kahn","year":"2014","journal-title":"Lancet"},{"issue":"3","key":"ref21","doi-asserted-by":"crossref","first-page":"e1002444","DOI":"10.1371\/journal.pcbi.1002444","article-title":"&quot;Guilt by association&quot; is the exception rather than the rule in gene networks","volume":"8","author":"J Gillis","year":"2012","journal-title":"PLoS Comput Biol"},{"key":"ref22","doi-asserted-by":"crossref","first-page":"W214","DOI":"10.1093\/nar\/gkq537","article-title":"The GeneMANIA prediction server: biological network integration for gene prioritization and predicting gene function","volume":"38","author":"D Warde-Farley","year":"2010","journal-title":"Nucleic Acids Res"},{"issue":"W1","key":"ref23","doi-asserted-by":"crossref","first-page":"W117","DOI":"10.1093\/nar\/gkw365","article-title":"Candidate gene prioritization with Endeavour","volume":"44","author":"LC Tranchevent","year":"2016","journal-title":"Nucleic Acids Res"},{"key":"ref24","doi-asserted-by":"crossref","first-page":"44","DOI":"10.1016\/j.jprot.2014.01.020","article-title":"Bias tradeoffs in the creation and analysis of protein-protein interaction networks","volume":"100","author":"J Gillis","year":"2014","journal-title":"J Proteomics"},{"issue":"2","key":"ref25","doi-asserted-by":"crossref","first-page":"224","DOI":"10.1016\/j.ajhg.2012.06.007","article-title":"Optimal unified approach for rare-variant association testing with application to small-sample case-control whole-exome sequencing studies","volume":"91","author":"S Lee","year":"2012","journal-title":"Am J Hum Genet"},{"issue":"6235","key":"ref26","doi-asserted-by":"crossref","first-page":"648","DOI":"10.1126\/science.1262110","article-title":"Human genomics. The Genotype-Tissue Expression (GTEx) pilot analysis: multitissue gene regulation in humans","volume":"348","author":"GT Consortium","year":"2015","journal-title":"Science"},{"issue":"9","key":"ref27","doi-asserted-by":"crossref","first-page":"1554","DOI":"10.1101\/gr.150706.112","article-title":"Cell-type, allelic, and genetic signatures in the human pancreatic beta cell transcriptome","volume":"23","author":"AC Nica","year":"2013","journal-title":"Genome Res"},{"issue":"12","key":"ref28","doi-asserted-by":"crossref","first-page":"e1005694","DOI":"10.1371\/journal.pgen.1005694","article-title":"Transcript Expression Data from Human Islets Links Regulatory Signals from Genome-Wide Association Studies for Type 2 Diabetes and Glycemic Traits to Their Downstream Effectors","volume":"11","author":"M van de Bunt","year":"2015","journal-title":"PLoS Genet"},{"key":"ref29","doi-asserted-by":"crossref","first-page":"69","DOI":"10.1007\/978-1-4614-8778-4_4","article-title":"Computational approaches for human disease gene prediction and ranking","volume":"799","author":"C Zhu","year":"2014","journal-title":"Adv Exp Med Biol"},{"issue":"9","key":"ref30","doi-asserted-by":"crossref","first-page":"679","DOI":"10.1007\/s00438-012-0710-z","article-title":"Candidate gene prioritization","volume":"287","author":"A Masoudi-Nejad","year":"2012","journal-title":"Mol Genet Genomics"},{"issue":"1","key":"ref31","doi-asserted-by":"crossref","first-page":"22","DOI":"10.1093\/bib\/bbq007","article-title":"A guide to web tools to prioritize candidate genes","volume":"12","author":"LC Tranchevent","year":"2011","journal-title":"Brief Bioinform"},{"issue":"3","key":"ref32","doi-asserted-by":"crossref","first-page":"e1003379","DOI":"10.1371\/journal.pgen.1003379","article-title":"Trans-ethnic fine-mapping of lipid loci identifies population-specific signals and allelic heterogeneity that increases the trait variance explained","volume":"9","author":"Y Wu","year":"2013","journal-title":"PLoS Genet"},{"issue":"22","key":"ref33","doi-asserted-by":"crossref","first-page":"2144","DOI":"10.1056\/NEJMoa1604304","article-title":"Variation in PCSK9 and HMGCR and Risk of Cardiovascular Disease and Diabetes","volume":"375","author":"BA Ference","year":"2016","journal-title":"N Engl J Med"},{"issue":"7","key":"ref34","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":"ref35","doi-asserted-by":"crossref","first-page":"D810","DOI":"10.1093\/nar\/gkt1225","article-title":"The Mouse Genome Database: integration of and access to knowledge about the laboratory mouse","volume":"42","author":"JA Blake","year":"2014","journal-title":"Nucleic Acids Res"},{"issue":"16","key":"ref36","doi-asserted-by":"crossref","first-page":"6062","DOI":"10.1073\/pnas.0400782101","article-title":"A gene atlas of the mouse and human protein-encoding transcriptomes","volume":"101","author":"AI Su","year":"2004","journal-title":"Proc Natl Acad Sci U S A"},{"issue":"29","key":"ref37","doi-asserted-by":"crossref","first-page":"10357","DOI":"10.1073\/pnas.0503357102","article-title":"Adult mouse brain gene expression patterns bear an embryologic imprint","volume":"102","author":"MA Zapala","year":"2005","journal-title":"Proc Natl Acad Sci U S A"},{"issue":"4","key":"ref38","doi-asserted-by":"crossref","first-page":"322","DOI":"10.1038\/nbt0410-322","article-title":"A global map of human gene expression","volume":"28","author":"M Lukk","year":"2010","journal-title":"Nat Biotechnol"},{"issue":"3","key":"ref39","doi-asserted-by":"crossref","first-page":"R22","DOI":"10.1186\/gb-2005-6-3-r22","article-title":"A DNA microarray survey of gene expression in normal human tissues","volume":"6","author":"R Shyamsundar","year":"2005","journal-title":"Genome Biol"},{"issue":"4","key":"ref40","doi-asserted-by":"crossref","first-page":"1151","DOI":"10.1016\/S0002-9440(10)63911-9","article-title":"Exploration of global gene expression patterns in pancreatic adenocarcinoma using cDNA microarrays","volume":"162","author":"CA Iacobuzio-Donahue","year":"2003","journal-title":"Am J Pathol"},{"issue":"1","key":"ref41","doi-asserted-by":"crossref","first-page":"25","DOI":"10.1038\/75556","article-title":"Gene ontology: tool for the unification of biology. The Gene Ontology Consortium","volume":"25","author":"M Ashburner","year":"2000","journal-title":"Nat Genet"},{"key":"ref42","doi-asserted-by":"crossref","first-page":"D561","DOI":"10.1093\/nar\/gkq973","article-title":"The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored","volume":"39","author":"D Szklarczyk","year":"2011","journal-title":"Nucleic Acids Res"},{"key":"ref43","doi-asserted-by":"crossref","first-page":"D355","DOI":"10.1093\/nar\/gkp896","article-title":"KEGG for representation and analysis of molecular networks involving diseases and drugs","volume":"38","author":"M Kanehisa","year":"2010","journal-title":"Nucleic Acids Res"},{"key":"ref44","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":"ref45","doi-asserted-by":"crossref","first-page":"D306","DOI":"10.1093\/nar\/gkr948","article-title":"InterPro in 2011: new developments in the family and domain prediction database","volume":"40","author":"S Hunter","year":"2012","journal-title":"Nucleic Acids Res"},{"issue":"2","key":"ref46","doi-asserted-by":"crossref","first-page":"e17258","DOI":"10.1371\/journal.pone.0017258","article-title":"The impact of multifunctional genes on &quot;guilt by association&quot; analysis","volume":"6","author":"J Gillis","year":"2011","journal-title":"PLoS One"},{"issue":"7422","key":"ref47","doi-asserted-by":"crossref","first-page":"56","DOI":"10.1038\/nature11632","article-title":"An integrated map of genetic variation from 1,092 human genomes","volume":"491","author":"C Genomes Project","year":"2012","journal-title":"Nature"},{"key":"ref48","doi-asserted-by":"crossref","first-page":"233","DOI":"10.1186\/1471-2105-6-233","article-title":"GeneRank: using search engine technology for the analysis of microarray experiments","volume":"6","author":"JL Morrison","year":"2005","journal-title":"BMC Bioinformatics"},{"issue":"6","key":"ref49","doi-asserted-by":"crossref","first-page":"802","DOI":"10.1101\/gr.184325.114","article-title":"The clustering of functionally related genes contributes to CNV-mediated disease","volume":"25","author":"T Andrews","year":"2015","journal-title":"Genome Res"},{"issue":"2","key":"ref50","doi-asserted-by":"crossref","first-page":"76","DOI":"10.1109\/TNSE.2015.2391998","article-title":"Random Walks, Markov Processes and the Multiscale Modular Organization of Complex Networks","volume":"1","author":"R Lambiotte","year":"2014","journal-title":"IEEE Transactions on Network Science and Engineering"},{"issue":"10","key":"ref51","doi-asserted-by":"crossref","first-page":"P10008","DOI":"10.1088\/1742-5468\/2008\/10\/P10008","article-title":"Fast unfolding of communities in large networks","volume":"2008","author":"VD Blondel","year":"2008","journal-title":"Journal of Statistical Mechanics: Theory and Experiment"},{"key":"ref52","doi-asserted-by":"crossref","unstructured":"Bastian M, Heymann S, Jacomy M. Gephi: An Open Source Software for Exploring and Manipulating Networks2009.","DOI":"10.1609\/icwsm.v3i1.13937"},{"key":"ref53","doi-asserted-by":"crossref","first-page":"D966","DOI":"10.1093\/nar\/gkt1026","article-title":"The Human Phenotype Ontology project: linking molecular biology and disease through phenotype data","volume":"42","author":"S Kohler","year":"2014","journal-title":"Nucleic Acids Res"}],"updated-by":[{"DOI":"10.1371\/journal.pcbi.1005816","type":"new_version","label":"New version","source":"publisher","updated":{"date-parts":[[2017,11,2]],"date-time":"2017-11-02T00:00:00Z","timestamp":1509580800000}}],"container-title":["PLOS Computational Biology"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/dx.plos.org\/10.1371\/journal.pcbi.1005816","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,8,27]],"date-time":"2023-08-27T08:21:04Z","timestamp":1693124464000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pcbi.1005816"}},"subtitle":[],"editor":[{"given":"Jun","family":"Zhu","sequence":"first","affiliation":[],"role":[{"role":"editor","vocabulary":"crossref"}]}],"short-title":[],"issued":{"date-parts":[[2017,10,23]]},"references-count":53,"journal-issue":{"issue":"10","published-online":{"date-parts":[[2017,10,23]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pcbi.1005816","relation":{},"ISSN":["1553-7358"],"issn-type":[{"value":"1553-7358","type":"electronic"}],"subject":[],"published":{"date-parts":[[2017,10,23]]}}}