Mapping Molecular Association Networks of Nervous System Diseases via Large-Scale Analysis of Published Research
Identifieur interne : 000D50 ( Main/Merge ); précédent : 000D49; suivant : 000D51Mapping Molecular Association Networks of Nervous System Diseases via Large-Scale Analysis of Published Research
Auteurs : Xiaojun Hu [République populaire de Chine] ; Dangzhi Zhao [Canada] ; Andreas Strotmann [Allemagne]Source :
- PLoS ONE [ 1932-6203 ] ; 2013.
Abstract
Network medicine has been applied successfully to elicit the structure of large-scale molecular interaction networks. Its main proponents have claimed that this approach to integrative medical investigation should make it possible to identify functional modules of interacting molecular biological units as well as interactions themselves. This paper takes a significant step in this direction. Based on a large-scale analysis of the nervous system molecular medicine literature, this study analyzes and visualizes the complex structure of associations between diseases on the one hand and all types of molecular substances on the other. From this analysis it then identifies functional co-association groups consisting of several types of molecular substances, each consisting of substances that exhibit a pattern of frequent co-association with similar diseases. These groups in turn exhibit interlinking in a complex pattern, suggesting that such complex interactions between functional molecular modules may play a role in disease etiology. We find that the patterns exhibited by the networks of disease – molecular substance associations studied here correspond well to a number of recently published research results, and that the groups of molecular substances identified by statistical analysis of these networks do appear to be interesting groups of molecular substances that are interconnected in identifiable and interpretable ways. Our results not only demonstrate that networks are a convenient framework to analyze and visualize large-scale, complex relationships among molecular networks and diseases, but may also provide a conceptual basis for bridging gaps in experimental and theoretical knowledge.
Url:
DOI: 10.1371/journal.pone.0067121
PubMed: 23825632
PubMed Central: 3692415
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Mapping Molecular Association Networks of Nervous System Diseases via Large-Scale Analysis of Published Research</title><author><name sortKey="Hu, Xiaojun" sort="Hu, Xiaojun" uniqKey="Hu X" first="Xiaojun" last="Hu">Xiaojun Hu</name><affiliation wicri:level="3"><nlm:aff id="aff1"><addr-line>Medical Information Centre, Zhejiang University School of Medicine, Hangzhou, China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Medical Information Centre, Zhejiang University School of Medicine, Hangzhou</wicri:regionArea><placeName><settlement type="city">Hangzhou</settlement><region type="province">Zhejiang</region></placeName></affiliation></author><author><name sortKey="Zhao, Dangzhi" sort="Zhao, Dangzhi" uniqKey="Zhao D" first="Dangzhi" last="Zhao">Dangzhi Zhao</name><affiliation wicri:level="1"><nlm:aff id="aff2"><addr-line>School of Library and Information Studies, 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Published Research</title><author><name sortKey="Hu, Xiaojun" sort="Hu, Xiaojun" uniqKey="Hu X" first="Xiaojun" last="Hu">Xiaojun Hu</name><affiliation wicri:level="3"><nlm:aff id="aff1"><addr-line>Medical Information Centre, Zhejiang University School of Medicine, Hangzhou, China</addr-line></nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Medical Information Centre, Zhejiang University School of Medicine, Hangzhou</wicri:regionArea><placeName><settlement type="city">Hangzhou</settlement><region type="province">Zhejiang</region></placeName></affiliation></author><author><name sortKey="Zhao, Dangzhi" sort="Zhao, Dangzhi" uniqKey="Zhao D" first="Dangzhi" last="Zhao">Dangzhi Zhao</name><affiliation wicri:level="1"><nlm:aff id="aff2"><addr-line>School of Library and Information Studies, University of Alberta, Edmonton, Canada</addr-line></nlm:aff><country xml:lang="fr">Canada</country><wicri:regionArea>School of Library and Information Studies, University of Alberta, Edmonton</wicri:regionArea><wicri:noRegion>Edmonton</wicri:noRegion></affiliation></author><author><name sortKey="Strotmann, Andreas" sort="Strotmann, Andreas" uniqKey="Strotmann A" first="Andreas" last="Strotmann">Andreas Strotmann</name><affiliation wicri:level="1"><nlm:aff id="aff3"><addr-line>GESIS – Leibniz Institute for the Social Sciences, Cologne, Germany</addr-line></nlm:aff><country xml:lang="fr">Allemagne</country><wicri:regionArea>GESIS – Leibniz Institute for the Social Sciences, Cologne</wicri:regionArea><wicri:noRegion>Cologne</wicri:noRegion><wicri:noRegion>Cologne</wicri:noRegion><wicri:noRegion>Cologne</wicri:noRegion></affiliation></author></analytic><series><title level="j">PLoS ONE</title><idno type="eISSN">1932-6203</idno><imprint><date when="2013">2013</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>Network medicine has been applied successfully to elicit the structure of large-scale molecular interaction networks. Its main proponents have claimed that this approach to integrative medical investigation should make it possible to identify functional modules of interacting molecular biological units as well as interactions themselves. This paper takes a significant step in this direction. Based on a large-scale analysis of the nervous system molecular medicine literature, this study analyzes and visualizes the complex structure of associations between diseases on the one hand and all types of molecular substances on the other. From this analysis it then identifies functional co-association groups consisting of several types of molecular substances, each consisting of substances that exhibit a pattern of frequent co-association with similar diseases. These groups in turn exhibit interlinking in a complex pattern, suggesting that such complex interactions between functional molecular modules may play a role in disease etiology. We find that the patterns exhibited by the networks of disease – molecular substance associations studied here correspond well to a number of recently published research results, and that the groups of molecular substances identified by statistical analysis of these networks do appear to be interesting groups of molecular substances that are interconnected in identifiable and interpretable ways. Our results not only demonstrate that networks are a convenient framework to analyze and visualize large-scale, complex relationships among molecular networks and diseases, but may also provide a conceptual basis for bridging gaps in experimental and theoretical knowledge.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Garfield, E" uniqKey="Garfield E">E Garfield</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Davidoff, F" uniqKey="Davidoff F">F Davidoff</name></author><author><name sortKey="Haynes, B" uniqKey="Haynes B">B Haynes</name></author><author><name sortKey="Sackett, D" uniqKey="Sackett D">D Sackett</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Barabasi, Al" uniqKey="Barabasi A">AL Barabási</name></author><author><name sortKey="Gulbahce, N" uniqKey="Gulbahce N">N Gulbahce</name></author><author><name sortKey="Loscalzo, J" uniqKey="Loscalzo J">J Loscalzo</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Ideker, T" uniqKey="Ideker T">T Ideker</name></author><author><name sortKey="Krogan, Nj" uniqKey="Krogan N">NJ Krogan</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Isserlin, R" uniqKey="Isserlin R">R Isserlin</name></author><author><name sortKey="Emili, A" uniqKey="Emili A">A Emili</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Li, J" uniqKey="Li J">J Li</name></author><author><name sortKey="Zhu, Xy" uniqKey="Zhu X">XY Zhu</name></author><author><name sortKey="Chen, Jy" uniqKey="Chen J">JY Chen</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Margineanu, Dg" uniqKey="Margineanu D">DG Margineanu</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Zhao, Zm" uniqKey="Zhao Z">ZM Zhao</name></author><author><name sortKey="Kier, Lb" uniqKey="Kier L">LB Kier</name></author><author><name sortKey="Buck, Ga" uniqKey="Buck G">GA Buck</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Schadt, Ee" uniqKey="Schadt E">EE Schadt</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Barabasi, Al" uniqKey="Barabasi A">AL Barabási</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Morgan, Tm" uniqKey="Morgan T">TM Morgan</name></author><author><name sortKey="Krumholz, Hm" uniqKey="Krumholz H">HM Krumholz</name></author><author><name sortKey="Lifton, Rp" uniqKey="Lifton R">RP Lifton</name></author><author><name sortKey="Spertus, Ja" uniqKey="Spertus J">JA Spertus</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Barabasi, Al" uniqKey="Barabasi A">AL Barabási</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Yates, D" uniqKey="Yates D">D Yates</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Wolk, Da" uniqKey="Wolk D">DA Wolk</name></author><author><name sortKey="Dickerson, Bc" uniqKey="Dickerson B">BC Dickerson</name></author><author><name sortKey="The Alzheimer Disease Neuroimaging, Initiative" uniqKey="The Alzheimer Disease Neuroimaging I">Initiative the Alzheimer’s Disease Neuroimaging</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Crews, L" uniqKey="Crews L">L Crews</name></author><author><name sortKey="Masliah, E" uniqKey="Masliah E">E Masliah</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Larner, Aj" uniqKey="Larner A">AJ Larner</name></author><author><name sortKey="Doran, M" uniqKey="Doran M">M Doran</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Mueller, Wc" uniqKey="Mueller W">WC Mueller</name></author><author><name sortKey="Von Deimling, A" uniqKey="Von Deimling A">A von Deimling</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Riemenschneider, Mj" uniqKey="Riemenschneider M">MJ Riemenschneider</name></author><author><name sortKey="Hegi, Me" uniqKey="Hegi M">ME Hegi</name></author><author><name sortKey="Reifenberger, G" uniqKey="Reifenberger G">G Reifenberger</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Komotar, Rj" uniqKey="Komotar R">RJ Komotar</name></author><author><name sortKey="Starke, Rm" uniqKey="Starke R">RM Starke</name></author><author><name sortKey="Connolly, Es" uniqKey="Connolly E">ES Connolly</name></author><author><name sortKey="Sisti, Mb" uniqKey="Sisti M">MB Sisti</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Poston, Kl" uniqKey="Poston K">KL Poston</name></author><author><name sortKey="Tang, Cc" uniqKey="Tang C">CC Tang</name></author><author><name sortKey="Eckert, T" uniqKey="Eckert T">T Eckert</name></author><author><name sortKey="Dhawan, V" uniqKey="Dhawan V">V Dhawan</name></author><author><name sortKey="Frucht, S" uniqKey="Frucht S">S Frucht</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Gitler, Ad" uniqKey="Gitler A">AD Gitler</name></author><author><name sortKey="Bevis, Bj" uniqKey="Bevis B">BJ Bevis</name></author><author><name sortKey="Shorter, J" uniqKey="Shorter J">J Shorter</name></author><author><name sortKey="Strathearn, Ke" uniqKey="Strathearn K">KE Strathearn</name></author><author><name sortKey="Hamamichi, S" uniqKey="Hamamichi S">S Hamamichi</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Olanow, Cw" uniqKey="Olanow C">CW Olanow</name></author><author><name sortKey="Mcnaught, K" uniqKey="Mcnaught K">K McNaught</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Saiki, S" uniqKey="Saiki S">S Saiki</name></author><author><name sortKey="Sato, S" uniqKey="Sato S">S Sato</name></author><author><name sortKey="Hattori, N" uniqKey="Hattori N">N Hattori</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Sakoguchi, T" uniqKey="Sakoguchi T">T Sakoguchi</name></author><author><name sortKey="Hama, S" uniqKey="Hama S">S Hama</name></author><author><name sortKey="Tominaga, A" uniqKey="Tominaga A">A Tominaga</name></author><author><name sortKey="Kinoshita, Y" uniqKey="Kinoshita Y">Y Kinoshita</name></author><author><name sortKey="Sugiyama, K" uniqKey="Sugiyama K">K Sugiyama</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Farmer, C" uniqKey="Farmer C">C Farmer</name></author><author><name sortKey="Cox, Jj" uniqKey="Cox J">JJ Cox</name></author><author><name sortKey="Fletcher, Ev" uniqKey="Fletcher E">EV Fletcher</name></author><author><name sortKey="Woods, Cg" uniqKey="Woods C">CG Woods</name></author><author><name sortKey="Wood, Jn" uniqKey="Wood J">JN Wood</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Goedert, M" uniqKey="Goedert M">M Goedert</name></author><author><name sortKey="Spillantini, Mg" uniqKey="Spillantini M">MG Spillantini</name></author><author><name sortKey="Crowther, Ra" uniqKey="Crowther R">RA Crowther</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Murrell, J" uniqKey="Murrell J">J Murrell</name></author><author><name sortKey="Farlow, M" uniqKey="Farlow M">M Farlow</name></author><author><name sortKey="Ghetti, B" uniqKey="Ghetti B">B Ghetti</name></author><author><name sortKey="Benson, Md" uniqKey="Benson M">MD Benson</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Dias, N" uniqKey="Dias N">N Dias</name></author><author><name sortKey="Stein, Ca" uniqKey="Stein C">CA Stein</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Chava, Kr" uniqKey="Chava K">KR Chava</name></author><author><name sortKey="Tauseef, M" uniqKey="Tauseef M">M Tauseef</name></author><author><name sortKey="Sharma, T" uniqKey="Sharma T">T Sharma</name></author><author><name sortKey="Mehta, D" uniqKey="Mehta D">D Mehta</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Cohen, S" uniqKey="Cohen S">S Cohen</name></author><author><name sortKey="Zhou, Z" uniqKey="Zhou Z">Z Zhou</name></author><author><name sortKey="Greenberg, Me" uniqKey="Greenberg M">ME Greenberg</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Brown, Dr" uniqKey="Brown D">DR Brown</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Al Bassam, J" uniqKey="Al Bassam J">J Al-Bassam</name></author><author><name sortKey="Ozer, Rs" uniqKey="Ozer R">RS Ozer</name></author><author><name sortKey="Safer, D" uniqKey="Safer D">D Safer</name></author><author><name sortKey="Halpain, S" uniqKey="Halpain S">S 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uniqKey="Wong L">L Wong</name></author><author><name sortKey="Wu, Ch" uniqKey="Wu C">CH Wu</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Goh, Ki" uniqKey="Goh K">KI Goh</name></author><author><name sortKey="Cusick, Me" uniqKey="Cusick M">ME Cusick</name></author><author><name sortKey="Valle, D" uniqKey="Valle D">D Valle</name></author><author><name sortKey="Childs, B" uniqKey="Childs B">B Childs</name></author><author><name sortKey="Vidal, M" uniqKey="Vidal M">M Vidal</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Zhao, Dz" uniqKey="Zhao D">DZ Zhao</name></author><author><name sortKey="Strotmann, A" uniqKey="Strotmann A">A Strotmann</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Wishart, Ds" uniqKey="Wishart D">DS Wishart</name></author><author><name sortKey="Knox, C" uniqKey="Knox C">C Knox</name></author><author><name sortKey="Guo, Ac" uniqKey="Guo A">AC Guo</name></author><author><name sortKey="Cheng, D" uniqKey="Cheng D">D Cheng</name></author><author><name sortKey="Shrivastava, S" uniqKey="Shrivastava S">S Shrivastava</name></author></analytic></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct></biblStruct><biblStruct><analytic><author><name sortKey="Chen, H" uniqKey="Chen H">H Chen</name></author><author><name sortKey="Sharp, Bm" uniqKey="Sharp B">BM Sharp</name></author></analytic></biblStruct><biblStruct></biblStruct><biblStruct><analytic><author><name sortKey="Barbosa Silva, A" uniqKey="Barbosa Silva A">A Barbosa-Silva</name></author><author><name sortKey="Fontaine, Jf" uniqKey="Fontaine J">JF Fontaine</name></author><author><name sortKey="Donnard, Er" uniqKey="Donnard E">ER Donnard</name></author><author><name sortKey="Stussi, F" uniqKey="Stussi F">F Stussi</name></author><author><name sortKey="Ortega, Jm" uniqKey="Ortega J">JM Ortega</name></author><author><name sortKey="Andrade Navarro, Ma" uniqKey="Andrade Navarro M">MA Andrade-Navarro</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Hoffmann, R" uniqKey="Hoffmann R">R Hoffmann</name></author><author><name sortKey="Valencia, A" uniqKey="Valencia A">A Valencia</name></author></analytic></biblStruct></listBibl></div1></back></TEI></record>Pour manipuler ce document sous Unix (Dilib)
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