{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,5,4]],"date-time":"2025-05-04T20:40:02Z","timestamp":1746391202226,"version":"3.40.4"},"publisher-location":"Cham","reference-count":19,"publisher":"Springer International Publishing","isbn-type":[{"type":"print","value":"9783319094649"},{"type":"electronic","value":"9783319094656"}],"license":[{"start":{"date-parts":[[2014,1,1]],"date-time":"2014-01-01T00:00:00Z","timestamp":1388534400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"},{"start":{"date-parts":[[2014,1,1]],"date-time":"2014-01-01T00:00:00Z","timestamp":1388534400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2014]]},"DOI":"10.1007\/978-3-319-09465-6_38","type":"book-chapter","created":{"date-parts":[[2014,9,24]],"date-time":"2014-09-24T15:12:53Z","timestamp":1411571573000},"page":"367-376","update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":1,"title":["Modeling Structural Protein Interaction Networks for Betweenness Analysis"],"prefix":"10.1007","author":[{"given":"Deniz","family":"Demircio\u011flu","sequence":"first","affiliation":[]},{"given":"\u00d6zlem","family":"Keskin","sequence":"additional","affiliation":[]},{"given":"Attila","family":"Gursoy","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2014,9,25]]},"reference":[{"issue":"2","key":"38_CR1","doi-asserted-by":"publisher","first-page":"101","DOI":"10.1038\/nrg1272","volume":"5","author":"AL Barab\u00e1si","year":"2004","unstructured":"A.L. Barab\u00e1si, Z.N. Oltvai, Network biology: understanding the cell\u2019s functional organization. Nat. Rev. Genet. 5(2), 101\u2013113 (2004)","journal-title":"Nat. Rev. Genet."},{"issue":"6","key":"38_CR2","doi-asserted-by":"publisher","first-page":"227","DOI":"10.1016\/j.tig.2004.04.008","volume":"20","author":"H Yu","year":"2004","unstructured":"H. Yu, D. Greenbaum, H. Xin Lu, X. Zhu, M. Gerstein, Genomic analysis of essentiality within protein networks. Trends Genet. 20(6), 227\u2013231 (2004)","journal-title":"Trends Genet."},{"issue":"5439","key":"38_CR3","doi-asserted-by":"publisher","first-page":"509","DOI":"10.1126\/science.286.5439.509","volume":"286","author":"AL Barab\u00e1si","year":"1999","unstructured":"A.L. Barab\u00e1si, R. Albert, Emergence of scaling in random networks. Science 286(5439), 509\u2013512 (1999)","journal-title":"Science"},{"issue":"6794","key":"38_CR4","doi-asserted-by":"publisher","first-page":"378","DOI":"10.1038\/35019019","volume":"406","author":"R Albert","year":"2000","unstructured":"R. Albert, H. Jeong, A.L. Barab\u00e1si, Error and attack tolerance of complex networks. Nature 406(6794), 378\u2013382 (2000)","journal-title":"Nature"},{"issue":"6833","key":"38_CR5","doi-asserted-by":"publisher","first-page":"41","DOI":"10.1038\/35075138","volume":"411","author":"H Jeong","year":"2001","unstructured":"H. Jeong, S.P. Mason, A.-L. Barab\u00e1si, Z.N. Oltvai, Lethality and centrality in protein networks. Nature 411(6833), 41\u201342 (2001)","journal-title":"Nature"},{"issue":"9","key":"38_CR6","doi-asserted-by":"publisher","first-page":"2812","DOI":"10.1093\/nar\/gkl325","volume":"34","author":"AX Valente","year":"2006","unstructured":"A.X. Valente, M.E. Cusick, Yeast Protein Interactome topology provides framework for coordinated-functionality. Nucleic. Acids Res. 34(9), 2812\u20132819 (2006)","journal-title":"Nucleic. Acids Res."},{"issue":"Pt 6","key":"38_CR7","doi-asserted-by":"publisher","first-page":"1398","DOI":"10.1042\/BST0361398","volume":"36","author":"A Gursoy","year":"2008","unstructured":"A. Gursoy, O. Keskin, R. Nussinov, Topological properties of protein interaction networks from a structural perspective. Biochem. Soc. Trans. 36(Pt 6), 1398\u20131403 (2008)","journal-title":"Biochem. Soc. Trans."},{"issue":"12","key":"38_CR8","doi-asserted-by":"publisher","first-page":"1770","DOI":"10.1039\/b905661k","volume":"5","author":"N Tuncbag","year":"2009","unstructured":"N. Tuncbag, G. Kar, A. Gursoy, O. Keskin, R. Nussinov, Towards inferring time dimensionality in protein\u2013protein interaction networks by integrating structures: the p53 example. Mol. Biosyst. 5(12), 1770\u20131778 (2009)","journal-title":"Mol. Biosyst."},{"key":"38_CR9","doi-asserted-by":"crossref","unstructured":"H.T.T. Phan, M.J.E. Stemberg, E. Gelenbe: Aligning protein-protein interaction networks using random neural networks. in: Proceedings of the Bioinformatics and Biomedicine (BIBM), 2012 IEEE International Conference on, 1\u20136 (2012)","DOI":"10.1109\/BIBM.2012.6392664"},{"issue":"1","key":"38_CR10","doi-asserted-by":"publisher","first-page":"235","DOI":"10.1093\/nar\/28.1.235","volume":"28","author":"HM Berman","year":"2000","unstructured":"H.M. Berman, J. Westbrook, Z. Feng, G. Gilliland, T.N. Bhat, H. Weissig, I.N. Shindyalov, P.E. Bourne, The protein data bank. Nucleic Acids Res. 28(1), 235\u2013242 (2000)","journal-title":"Nucleic Acids Res."},{"issue":"9","key":"38_CR11","doi-asserted-by":"publisher","first-page":"1341","DOI":"10.1038\/nprot.2011.367","volume":"6","author":"N Tuncbag","year":"2011","unstructured":"N. Tuncbag, A. Gursoy, R. Nussinov, O. Keskin, Predicting protein\u2013protein interactions on a proteome scale by matching evolutionary and structural similarities at interfaces using PRISM. Nat. Protoc. 6(9), 1341\u20131354 (2011)","journal-title":"Nat. Protoc."},{"issue":"8","key":"38_CR12","doi-asserted-by":"publisher","first-page":"2703","DOI":"10.1091\/mbc.10.8.2703","volume":"10","author":"KW Kohn","year":"1999","unstructured":"K.W. Kohn, Molecular interaction map of the mammalian cell cycle control and DNA repair systems. Mol. Biol. Cell. 10(8), 2703\u20132734 (1999)","journal-title":"Mol. Biol. Cell."},{"issue":"11","key":"38_CR13","doi-asserted-by":"publisher","first-page":"2498","DOI":"10.1101\/gr.1239303","volume":"13","author":"P Shannon","year":"2003","unstructured":"P. Shannon, A. Markiel, O. Ozier, N.S. Baliga, J.T. Wang, D. Ramage, N. Amin, B. Schwikowski, T. Ideker, Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome. Res. 13(11), 2498\u20132504 (2003)","journal-title":"Genome. Res."},{"issue":"4","key":"38_CR14","doi-asserted-by":"publisher","first-page":"e59","DOI":"10.1371\/journal.pcbi.0030059","volume":"3","author":"H Yu","year":"2007","unstructured":"H. Yu, P.M. Kim, E. Sprecher, V. Trifonov, M. Gerstein, The importance of bottlenecks in protein networks: correlation with gene essentiality and expression dynamics. PLoS Comput. Biol. 3(4), e59 (2007)","journal-title":"PLoS Comput. Biol."},{"key":"38_CR15","doi-asserted-by":"crossref","unstructured":"A.A. Hagberg, D.A. Schult, P.J. Swart: Exploring network structure, dynamics, and function using NetworkX. in: Proceedings of the 7th Python in Science Conference (SciPy2008), 11\u201315 (2008)","DOI":"10.25080\/TCWV9851"},{"issue":"2","key":"38_CR16","doi-asserted-by":"publisher","first-page":"136","DOI":"10.1016\/j.socnet.2007.11.001","volume":"30","author":"U Brandes","year":"2008","unstructured":"U. Brandes, On variants of shortest-path betweenness centrality and their generic computation. Social Netw. 30(2), 136\u2013145 (2008)","journal-title":"Social Netw."},{"issue":"4640","key":"38_CR17","doi-asserted-by":"publisher","first-page":"1028","DOI":"10.1126\/science.6320372","volume":"223","author":"AL Murphree","year":"1984","unstructured":"A.L. Murphree, W.F. Benedict, Retinoblastoma: clues to human oncogenesis. Science 223(4640), 1028\u20131033 (1984)","journal-title":"Science"},{"issue":"16","key":"38_CR18","doi-asserted-by":"publisher","first-page":"3448","DOI":"10.1093\/bioinformatics\/bti551","volume":"21","author":"S Maere","year":"2005","unstructured":"S. Maere, K. Heymans, M. Kuiper, BiNGO: a Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks. Bioinformatics 21(16), 3448\u20133449 (2005)","journal-title":"Bioinformatics"},{"issue":"13","key":"38_CR19","doi-asserted-by":"publisher","first-page":"1605","DOI":"10.1002\/jcc.20084","volume":"25","author":"EF Pettersen","year":"2004","unstructured":"E.F. Pettersen, T.D. Goddard, C.C. Huang, G.S. Couch, D.M. Greenblatt, E.C. Meng, T.E. Ferrin, UCSF Chimera-a visualization system for exploratory research and analysis. J. Comput. Chem. 25(13), 1605\u20131612 (2004)","journal-title":"J. Comput. Chem."}],"container-title":["Information Sciences and Systems 2014"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/978-3-319-09465-6_38","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,5,4]],"date-time":"2025-05-04T20:00:55Z","timestamp":1746388855000},"score":1,"resource":{"primary":{"URL":"https:\/\/link.springer.com\/10.1007\/978-3-319-09465-6_38"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2014]]},"ISBN":["9783319094649","9783319094656"],"references-count":19,"URL":"https:\/\/doi.org\/10.1007\/978-3-319-09465-6_38","relation":{},"subject":[],"published":{"date-parts":[[2014]]},"assertion":[{"value":"25 September 2014","order":1,"name":"first_online","label":"First Online","group":{"name":"ChapterHistory","label":"Chapter History"}}]}}