A DIseAse MOdule Detection (DIAMOnD) Algorithm Derived from a Systematic Analysis of Connectivity Patterns of Disease Proteins in the Human Interactome
Author
Abstract
Suggested Citation
DOI: 10.1371/journal.pcbi.1004120
Download full text from publisher
References listed on IDEAS
- Eric E. Schadt, 2009. "Molecular networks as sensors and drivers of common human diseases," Nature, Nature, vol. 461(7261), pages 218-223, September.
- Yong-Yeol Ahn & James P. Bagrow & Sune Lehmann, 2010. "Link communities reveal multiscale complexity in networks," Nature, Nature, vol. 466(7307), pages 761-764, August.
- Emre Guney & Baldo Oliva, 2012. "Exploiting Protein-Protein Interaction Networks for Genome-Wide Disease-Gene Prioritization," PLOS ONE, Public Library of Science, vol. 7(9), pages 1-12, September.
Citations
Citations are extracted by the CitEc Project, subscribe to its RSS feed for this item.
Cited by:
- Ke Hu & Ju Xiang & Yun-Xia Yu & Liang Tang & Qin Xiang & Jian-Ming Li & Yong-Hong Tang & Yong-Jun Chen & Yan Zhang, 2020. "Significance-based multi-scale method for network community detection and its application in disease-gene prediction," PLOS ONE, Public Library of Science, vol. 15(3), pages 1-24, March.
- Sepideh Sadegh & James Skelton & Elisa Anastasi & Andreas Maier & Klaudia Adamowicz & Anna Möller & Nils M. Kriege & Jaanika Kronberg & Toomas Haller & Tim Kacprowski & Anil Wipat & Jan Baumbach & Dav, 2023. "Lacking mechanistic disease definitions and corresponding association data hamper progress in network medicine and beyond," Nature Communications, Nature, vol. 14(1), pages 1-15, December.
- Pisanu Buphamalai & Tomislav Kokotovic & Vanja Nagy & Jörg Menche, 2021. "Network analysis reveals rare disease signatures across multiple levels of biological organization," Nature Communications, Nature, vol. 12(1), pages 1-15, December.
- Abby Hill & Scott Gleim & Florian Kiefer & Frederic Sigoillot & Joseph Loureiro & Jeremy Jenkins & Melody K Morris, 2019. "Benchmarking network algorithms for contextualizing genes of interest," PLOS Computational Biology, Public Library of Science, vol. 15(12), pages 1-14, December.
- Juan J Cáceres & Alberto Paccanaro, 2019. "Disease gene prediction for molecularly uncharacterized diseases," PLOS Computational Biology, Public Library of Science, vol. 15(7), pages 1-14, July.
- Sepideh Sadegh & James Skelton & Elisa Anastasi & Judith Bernett & David B. Blumenthal & Gihanna Galindez & Marisol Salgado-Albarrán & Olga Lazareva & Keith Flanagan & Simon Cockell & Cristian Nogales, 2021. "Network medicine for disease module identification and drug repurposing with the NeDRex platform," Nature Communications, Nature, vol. 12(1), pages 1-12, December.
- Peter Marx & Peter Antal & Bence Bolgar & Gyorgy Bagdy & Bill Deakin & Gabriella Juhasz, 2017. "Comorbidities in the diseasome are more apparent than real: What Bayesian filtering reveals about the comorbidities of depression," PLOS Computational Biology, Public Library of Science, vol. 13(6), pages 1-23, June.
Most related items
These are the items that most often cite the same works as this one and are cited by the same works as this one.- Amiri, Babak & Karimianghadim, Ramin, 2024. "A novel text clustering model based on topic modelling and social network analysis," Chaos, Solitons & Fractals, Elsevier, vol. 181(C).
- Jo, Hang-Hyun & Moon, Eunyoung, 2016. "Dynamical complexity in the perception-based network formation model," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 463(C), pages 282-292.
- Wei, Daijun & Deng, Xinyang & Zhang, Xiaoge & Deng, Yong & Mahadevan, Sankaran, 2013. "Identifying influential nodes in weighted networks based on evidence theory," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 392(10), pages 2564-2575.
- Tamás Nepusz & Tamás Vicsek, 2013. "Hierarchical Self-Organization of Non-Cooperating Individuals," PLOS ONE, Public Library of Science, vol. 8(12), pages 1-9, December.
- Wu, Zhihao & Lin, Youfang & Wan, Huaiyu & Tian, Shengfeng & Hu, Keyun, 2012. "Efficient overlapping community detection in huge real-world networks," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 391(7), pages 2475-2490.
- Yoo-Ah Kim & Stefan Wuchty & Teresa M Przytycka, 2011. "Identifying Causal Genes and Dysregulated Pathways in Complex Diseases," PLOS Computational Biology, Public Library of Science, vol. 7(3), pages 1-13, March.
- Badie, Reza & Aleahmad, Abolfazl & Asadpour, Masoud & Rahgozar, Maseud, 2013. "An efficient agent-based algorithm for overlapping community detection using nodes’ closeness," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 392(20), pages 5231-5247.
- Jean-Gabriel Young & Antoine Allard & Laurent Hébert-Dufresne & Louis J Dubé, 2015. "A Shadowing Problem in the Detection of Overlapping Communities: Lifting the Resolution Limit through a Cascading Procedure," PLOS ONE, Public Library of Science, vol. 10(10), pages 1-19, October.
- Wang, Yuyao & Bu, Zhan & Yang, Huan & Li, Hui-Jia & Cao, Jie, 2021. "An effective and scalable overlapping community detection approach: Integrating social identity model and game theory," Applied Mathematics and Computation, Elsevier, vol. 390(C).
- Le Ou-Yang & Dao-Qing Dai & Xiao-Fei Zhang, 2013. "Protein Complex Detection via Weighted Ensemble Clustering Based on Bayesian Nonnegative Matrix Factorization," PLOS ONE, Public Library of Science, vol. 8(5), pages 1-18, May.
- Seyed Yahya Anvar & Allan Tucker & Veronica Vinciotti & Andrea Venema & Gert-Jan B van Ommen & Silvere M van der Maarel & Vered Raz & Peter A C ‘t Hoen, 2011. "Interspecies Translation of Disease Networks Increases Robustness and Predictive Accuracy," PLOS Computational Biology, Public Library of Science, vol. 7(11), pages 1-14, November.
- Calvin McCarter & Judie Howrylak & Seyoung Kim, 2020. "Learning gene networks underlying clinical phenotypes using SNP perturbation," PLOS Computational Biology, Public Library of Science, vol. 16(10), pages 1-24, October.
- Jiang, Yasong & Li, Taisong & Zhang, Yan & Yan, Yonghong, 2017. "Collective prediction based on community structure," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 465(C), pages 587-598.
- Xu, Guiqiong & Meng, Lei, 2023. "A novel algorithm for identifying influential nodes in complex networks based on local propagation probability model," Chaos, Solitons & Fractals, Elsevier, vol. 168(C).
- Zhang, Hongli & Gao, Yang & Zhang, Yue, 2018. "Overlapping communities from dense disjoint and high total degree clusters," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 496(C), pages 286-298.
- Gao, Cai & Wei, Daijun & Hu, Yong & Mahadevan, Sankaran & Deng, Yong, 2013. "A modified evidential methodology of identifying influential nodes in weighted networks," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 392(21), pages 5490-5500.
- Cui, Xue-Mei & Yoon, Chang No & Youn, Hyejin & Lee, Sang Hoon & Jung, Jean S. & Han, Seung Kee, 2017. "Dynamic burstiness of word-occurrence and network modularity in textbook systems," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 487(C), pages 103-110.
- Eric P Xing & Ross E Curtis & Georg Schoenherr & Seunghak Lee & Junming Yin & Kriti Puniyani & Wei Wu & Peter Kinnaird, 2014. "GWAS in a Box: Statistical and Visual Analytics of Structured Associations via GenAMap," PLOS ONE, Public Library of Science, vol. 9(6), pages 1-19, June.
- Aurélien Naldi & Romain M Larive & Urszula Czerwinska & Serge Urbach & Philippe Montcourrier & Christian Roy & Jérôme Solassol & Gilles Freiss & Peter J Coopman & Ovidiu Radulescu, 2017. "Reconstruction and signal propagation analysis of the Syk signaling network in breast cancer cells," PLOS Computational Biology, Public Library of Science, vol. 13(3), pages 1-27, March.
- Hanlin You & Mengjun Li & Jiang Jiang & Bingfeng Ge & Xueting Zhang, 2017. "Evolution monitoring for innovation sources using patent cluster analysis," Scientometrics, Springer;Akadémiai Kiadó, vol. 111(2), pages 693-715, May.
Corrections
All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:plo:pcbi00:1004120. See general information about how to correct material in RePEc.
If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.
If CitEc recognized a bibliographic reference but did not link an item in RePEc to it, you can help with this form .
If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.
For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: ploscompbiol (email available below). General contact details of provider: https://journals.plos.org/ploscompbiol/ .
Please note that corrections may take a couple of weeks to filter through the various RePEc services.