{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2024,7,29]],"date-time":"2024-07-29T10:37:47Z","timestamp":1722249467287},"reference-count":47,"publisher":"Oxford University Press (OUP)","issue":"1","license":[{"start":{"date-parts":[[2013,8,30]],"date-time":"2013-08-30T00:00:00Z","timestamp":1377820800000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/www.springer.com\/tdm"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["GigaSci"],"published-print":{"date-parts":[[2013,12]]},"DOI":"10.1186\/2047-217x-2-11","type":"journal-article","created":{"date-parts":[[2013,8,30]],"date-time":"2013-08-30T13:13:45Z","timestamp":1377868425000},"source":"Crossref","is-referenced-by-count":6,"title":["Research prioritization through prediction of future impact on biomedical science: a position paper on inference-analytics"],"prefix":"10.1093","volume":"2","author":[{"given":"Madhavi K","family":"Ganapathiraju","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Naoki","family":"Orii","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2013,8,30]]},"reference":[{"key":"28_CR1","unstructured":"Amazon mechanical turk. http:\/\/www.mturk.com ."},{"key":"28_CR2","doi-asserted-by":"publisher","first-page":"349","DOI":"10.1083\/jcb.119.2.349","volume":"119","author":"JC Den Hartigh","year":"1992","unstructured":"Den Hartigh JC, Van Bergen En Henegouwen PM, Verkleij AJ, Boonstra J: The EGF receptor is an actin-binding protein. J Cell Biol. 1992, 119: 349-355. 10.1083\/jcb.119.2.349.","journal-title":"J Cell Biol"},{"key":"28_CR3","doi-asserted-by":"publisher","first-page":"149","DOI":"10.1145\/980972.980992","volume":"5","author":"J Gehrke","year":"2003","unstructured":"Gehrke J, Ginsparg P, Kleinberg J: Overview of the 2003 KDD Cup. SIGKDD Explor Newsl. 2003, 5: 149-151. 10.1145\/980972.980992.","journal-title":"SIGKDD Explor Newsl"},{"key":"28_CR4","first-page":"222","volume-title":"Models for predicting and explaining citation count of biomedical articles","author":"LD Fu","year":"2008","unstructured":"Fu LD, Aliferis C: Models for predicting and explaining citation count of biomedical articles. 2008, AMIA Annual Symposium proceedings \/ AMIA Symposium AMIA Symposium, 222-226."},{"key":"28_CR5","doi-asserted-by":"publisher","first-page":"3303","DOI":"10.1093\/bioinformatics\/btp585","volume":"25","author":"A Ibanez","year":"2009","unstructured":"Ibanez A, Larranaga P, Bielza C: Predicting citation count of Bioinformatics papers within four years of publication. Bioinformatics. 2009, 25: 3303-3309. 10.1093\/bioinformatics\/btp585.","journal-title":"Bioinformatics"},{"key":"28_CR6","doi-asserted-by":"publisher","first-page":"45","DOI":"10.1108\/00220410810844150","volume":"64","author":"L Bornmann","year":"2008","unstructured":"Bornmann L, Daniel HD: What do citation counts measure? A review of studies on citing behavior. J Doc. 2008, 64: 45-80. 10.1108\/00220410810844150.","journal-title":"J Doc"},{"key":"28_CR7","doi-asserted-by":"publisher","first-page":"6959","DOI":"10.1073\/pnas.0708078105","volume":"105","author":"MP Stumpf","year":"2008","unstructured":"Stumpf MP, Thorne T, de Silva E, Stewart R, An HJ, Lappe M, Wiuf C: Estimating the size of the human interactome. Proc Natl Acad Sci USA. 2008, 105: 6959-6964. 10.1073\/pnas.0708078105.","journal-title":"Proc Natl Acad Sci USA"},{"key":"28_CR8","doi-asserted-by":"publisher","first-page":"83","DOI":"10.1038\/nmeth.1280","volume":"6","author":"K Venkatesan","year":"2009","unstructured":"Venkatesan K, Rual JF, Vazquez A, Stelzl U, Lemmens I, Hirozane-Kishikawa T, Hao T, Zenkner M, Xin X, Goh KI: An empirical framework for binary interactome mapping. Nat Methods. 2009, 6: 83-90. 10.1038\/nmeth.1280.","journal-title":"Nat Methods"},{"key":"28_CR9","doi-asserted-by":"publisher","first-page":"2541","DOI":"10.1002\/pmic.200600924","volume":"7","author":"F Ram\u00edrez","year":"2007","unstructured":"Ram\u00edrez F, Schlicker A, Assenov Y, Lengauer T, Albrecht M: Computational analysis of human protein interaction networks. Proteomics. 2007, 7: 2541-2552. 10.1002\/pmic.200600924.","journal-title":"Proteomics"},{"key":"28_CR10","doi-asserted-by":"publisher","first-page":"e42","DOI":"10.1371\/journal.pcbi.0030042","volume":"3","author":"BA Shoemaker","year":"2007","unstructured":"Shoemaker BA, Panchenko AR: Deciphering protein-protein interactions. Part I. Experimental techniques and databases. PLoS computational biology. 2007, 3: e42-10.1371\/journal.pcbi.0030042.","journal-title":"PLoS computational biology"},{"key":"28_CR11","doi-asserted-by":"publisher","first-page":"e43","DOI":"10.1371\/journal.pcbi.0030043","volume":"3","author":"BA Shoemaker","year":"2007","unstructured":"Shoemaker BA, Panchenko AR: Deciphering protein-protein interactions. Part II. Computational methods to predict protein and domain interaction partners. PLoS computational biology. 2007, 3: e43-10.1371\/journal.pcbi.0030043.","journal-title":"PLoS computational biology"},{"key":"28_CR12","doi-asserted-by":"publisher","first-page":"5243","DOI":"10.1002\/pmic.200900259","volume":"9","author":"Y Qi","year":"2009","unstructured":"Qi Y, Dhiman HK, Bhola N, Budyak I, Kar S, Man D, Dutta A, Tirupula K, Carr BI, Grandis J: Systematic prediction of human membrane receptor interactions. Proteomics. 2009, 9: 5243-5255. 10.1002\/pmic.200900259.","journal-title":"Proteomics"},{"key":"28_CR13","doi-asserted-by":"publisher","first-page":"239","DOI":"10.1186\/1471-2105-8-239","volume":"8","author":"MS Scott","year":"2007","unstructured":"Scott MS, Barton GJ: Probabilistic prediction and ranking of human protein-protein interactions. BMC Bioinforma. 2007, 8: 239-10.1186\/1471-2105-8-239.","journal-title":"BMC Bioinforma"},{"key":"28_CR14","doi-asserted-by":"publisher","first-page":"4","DOI":"10.1186\/2042-5783-2-4","volume":"2","author":"S Ananthasubramanian","year":"2012","unstructured":"Ananthasubramanian S, Metri R, Khetan A, Gupta A, Handen A, Chandra N, Ganapathiraju M: Mycobacterium tuberculosis and Clostridium difficille interactomes: demonstration of rapid development of computational system for bacterial interactome prediction. Microbial informatics and experimentation. 2012, 2: 4-10.1186\/2042-5783-2-4.","journal-title":"Microbial informatics and experimentation"},{"key":"28_CR15","doi-asserted-by":"publisher","first-page":"434","DOI":"10.1093\/bfgp\/els045","volume":"11","author":"X Ma","year":"2012","unstructured":"Ma X, Gao L: Biological network analysis: insights into structure and functions. Briefings in functional genomics. 2012, 11: 434-442. 10.1093\/bfgp\/els045.","journal-title":"Briefings in functional genomics"},{"key":"28_CR16","doi-asserted-by":"publisher","first-page":"4619","DOI":"10.2174\/138161212802651562","volume":"18","author":"J Bultinck","year":"2012","unstructured":"Bultinck J, Lievens S, Tavernier J: Protein-protein interactions: network analysis and applications in drug discovery. Current pharmaceutical design. 2012, 18: 4619-4629. 10.2174\/138161212802651562.","journal-title":"Current pharmaceutical design"},{"key":"28_CR17","doi-asserted-by":"publisher","first-page":"118","DOI":"10.1186\/1471-2164-10-118","volume":"10","author":"T Cui","year":"2009","unstructured":"Cui T, Zhang L, Wang X, He ZG: Uncovering new signaling proteins and potential drug targets through the interactome analysis of Mycobacterium tuberculosis. BMC Genomics. 2009, 10: 118-10.1186\/1471-2164-10-118.","journal-title":"BMC Genomics"},{"key":"28_CR18","doi-asserted-by":"publisher","first-page":"3137","DOI":"10.1158\/1535-7163.MCT-10-0642","volume":"9","author":"AS Azmi","year":"2010","unstructured":"Azmi AS, Wang Z, Philip PA, Mohammad RM, Sarkar FH: Proof of concept: network and systems biology approaches aid in the discovery of potent anticancer drug combinations. Molecular cancer therapeutics. 2010, 9: 3137-3144. 10.1158\/1535-7163.MCT-10-0642.","journal-title":"Molecular cancer therapeutics"},{"key":"28_CR19","doi-asserted-by":"publisher","first-page":"56","DOI":"10.1038\/nrg2918","volume":"12","author":"AL Barabasi","year":"2011","unstructured":"Barabasi AL, Gulbahce N, Loscalzo J: Network medicine: a network-based approach to human disease. Nature reviews Genetics. 2011, 12: 56-68. 10.1038\/nrg2918.","journal-title":"Nature reviews Genetics"},{"key":"28_CR20","doi-asserted-by":"publisher","first-page":"D767","DOI":"10.1093\/nar\/gkn892","volume":"37","author":"TSK Prasad","year":"2009","unstructured":"Prasad TSK, Goel R, Kandasamy K, Keerthikumar S, Kumar S, Mathivanan S, Telikicherla D, Raju R, Shafreen B, Venugopal A: Human protein reference database-2009 update. Nucleic acids research. 2009, 37: D767-D772. 10.1093\/nar\/gkn892.","journal-title":"Nucleic acids research"},{"key":"28_CR21","doi-asserted-by":"publisher","first-page":"D698","DOI":"10.1093\/nar\/gkq1116","volume":"39","author":"C Stark","year":"2011","unstructured":"Stark C, Breitkreutz BJ, Chatr-Aryamontri A, Boucher L, Oughtred R, Livstone MS, Nixon J, Van Auken K, Wang X, Shi X: The BioGRID interaction database: 2011 update. Nucleic acids research. 2011, 39: D698-D704. 10.1093\/nar\/gkq1116.","journal-title":"Nucleic acids research"},{"key":"28_CR22","unstructured":"The Entrez programming utilities. http:\/\/www.ncbi.nlm.nih.gov\/books\/NBK25501\/ ."},{"key":"28_CR23","doi-asserted-by":"publisher","DOI":"10.1017\/CBO9780511815478","volume-title":"Social network analysis : methods and applications","author":"S Wasserman","year":"1994","unstructured":"Wasserman S, Faust K: Social network analysis : methods and applications. 1994, Cambridge, New York: Cambridge University Press"},{"key":"28_CR24","doi-asserted-by":"publisher","first-page":"101","DOI":"10.1038\/nrg1272","volume":"5","author":"AL Barabasi","year":"2004","unstructured":"Barabasi AL, Oltvai ZN: Network biology: understanding the cell\u2019s functional organization. Nature reviews Genetics. 2004, 5: 101-113. 10.1038\/nrg1272.","journal-title":"Nature reviews Genetics"},{"key":"28_CR25","doi-asserted-by":"publisher","first-page":"89","DOI":"10.1049\/iet-syb:20060038","volume":"1","author":"O Mason","year":"2007","unstructured":"Mason O, Verwoerd M: Graph theory and networks in biology. IET systems biology. 2007, 1: 89-119. 10.1049\/iet-syb:20060038.","journal-title":"IET systems biology"},{"key":"28_CR26","doi-asserted-by":"publisher","first-page":"227","DOI":"10.1016\/j.tig.2004.04.008","volume":"20","author":"H Yu","year":"2004","unstructured":"Yu H, Greenbaum D, Xin Lu H, Zhu X, Gerstein M: Genomic analysis of essentiality within protein networks. Trends in genetics : TIG. 2004, 20: 227-231. 10.1016\/j.tig.2004.04.008.","journal-title":"Trends in genetics : TIG"},{"key":"28_CR27","doi-asserted-by":"publisher","first-page":"41","DOI":"10.1038\/35075138","volume":"411","author":"H Jeong","year":"2001","unstructured":"Jeong H, Mason SP, Barabasi AL, Oltvai ZN: Lethality and centrality in protein networks. Nature. 2001, 411: 41-42. 10.1038\/35075138.","journal-title":"Nature"},{"key":"28_CR28","doi-asserted-by":"publisher","first-page":"8685","DOI":"10.1073\/pnas.0701361104","volume":"104","author":"KI Goh","year":"2007","unstructured":"Goh KI, Cusick ME, Valle D, Childs B, Vidal M, Barabasi AL: The human disease network. Proc Natl Acad Sci USA. 2007, 104: 8685-8690. 10.1073\/pnas.0701361104.","journal-title":"Proc Natl Acad Sci USA"},{"key":"28_CR29","doi-asserted-by":"publisher","first-page":"431","DOI":"10.1093\/bioinformatics\/btq675","volume":"27","author":"ME Smoot","year":"2011","unstructured":"Smoot ME, Ono K, Ruscheinski J, Wang PL, Ideker T: Cytoscape 2.8: new features for data integration and network visualization. Bioinformatics. 2011, 27: 431-432. 10.1093\/bioinformatics\/btq675.","journal-title":"Bioinformatics"},{"key":"28_CR30","doi-asserted-by":"publisher","first-page":"2498","DOI":"10.1101\/gr.1239303","volume":"13","author":"P Shannon","year":"2003","unstructured":"Shannon P, Markiel A, Ozier O, Baliga NS, Wang JT, Ramage D, Amin N, Schwikowski B, Ideker T: Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res. 2003, 13: 2498-2504. 10.1101\/gr.1239303.","journal-title":"Genome Res"},{"key":"28_CR31","doi-asserted-by":"publisher","first-page":"291","DOI":"10.1007\/978-1-60761-987-1_18","volume":"696","author":"M Kohl","year":"2011","unstructured":"Kohl M, Wiese S, Warscheid B: Cytoscape: software for visualization and analysis of biological networks. Methods Mol Biol. 2011, 696: 291-303. 10.1007\/978-1-60761-987-1_18.","journal-title":"Methods Mol Biol"},{"key":"28_CR32","unstructured":"Stanford network analysis library. http:\/\/snap.stanford.edu\/snap\/ ."},{"key":"28_CR33","first-page":"11","volume-title":"Exploring network structure, dynamics, and function using NetworkX","author":"A Hagberg","year":"2008","unstructured":"Hagberg A, Schult D, Swart P: Exploring network structure, dynamics, and function using NetworkX. 2008, SciPy 2008: Proceedings of the 7th Python in Science Conference, 11-15."},{"key":"28_CR34","doi-asserted-by":"publisher","first-page":"35","DOI":"10.2307\/3033543","volume":"40","author":"L Freeman","year":"1977","unstructured":"Freeman L: A Set of measures of centrality based on betweenness. Sociometry. 1977, 40: 35-41. 10.2307\/3033543.","journal-title":"Sociometry"},{"key":"28_CR35","volume-title":"The PageRank citation ranking: bringing order to the Web","author":"L Page","year":"1998","unstructured":"Page L, Brin S, Motwani R, Winograd T: The PageRank citation ranking: bringing order to the Web. 1998, Stanford InfoLab: Technical Report"},{"key":"28_CR36","doi-asserted-by":"publisher","first-page":"136","DOI":"10.1016\/j.socnet.2007.11.001","volume":"30","author":"U Brandes","year":"2008","unstructured":"Brandes U: On variants of shortest-path betweenness centrality and their generic computation. Soc Networks. 2008, 30: 136-145. 10.1016\/j.socnet.2007.11.001.","journal-title":"Soc Networks"},{"key":"28_CR37","first-page":"2825","volume":"12","author":"F Pedregosa","year":"2011","unstructured":"Pedregosa F, Varoquaux G, Gramfort A, Michel V, Thirion B, Grisel O, Blondel M, Prettenhofer P, Weiss R, Dubourg V: Scikit-learn: machine learning in python. J Mach Learn Res. 2011, 12: 2825-2830.","journal-title":"J Mach Learn Res"},{"key":"28_CR38","doi-asserted-by":"publisher","first-page":"5","DOI":"10.1023\/A:1010933404324","volume":"45","author":"L Breiman","year":"2001","unstructured":"Breiman L: Random forests. Mach Learn. 2001, 45: 5-32. 10.1023\/A:1010933404324.","journal-title":"Mach Learn"},{"key":"28_CR39","doi-asserted-by":"publisher","first-page":"1011","DOI":"10.1038\/nbt0908-1011","volume":"26","author":"C Kingsford","year":"2008","unstructured":"Kingsford C, Salzberg SL: What are decision trees?. Nat Biotechnol. 2008, 26: 1011-1013. 10.1038\/nbt0908-1011.","journal-title":"Nat Biotechnol"},{"key":"28_CR40","doi-asserted-by":"publisher","first-page":"4394","DOI":"10.1093\/bioinformatics\/bti721","volume":"21","author":"XW Chen","year":"2005","unstructured":"Chen XW, Liu M: Prediction of protein-protein interactions using random decision forest framework. Bioinformatics. 2005, 21: 4394-4400. 10.1093\/bioinformatics\/bti721.","journal-title":"Bioinformatics"},{"key":"28_CR41","first-page":"233","volume-title":"The relationship between precision-recall and ROC curves","author":"J Davis","year":"2006","unstructured":"Davis J, Goadrich M: The relationship between precision-recall and ROC curves. 2006, Pittsburgh, Pennsylvania: Proceedings of the 23rd international conference on Machine learning, 233-240. 1143874: ACM"},{"key":"28_CR42","doi-asserted-by":"publisher","first-page":"e49029","DOI":"10.1371\/journal.pone.0049029","volume":"7","author":"N Orii","year":"2012","unstructured":"Orii N, Ganapathiraju MK: Wiki-pi: a web-server of annotated human protein-protein interactions to aid in discovery of protein function. PloS one. 2012, 7: e49029-10.1371\/journal.pone.0049029.","journal-title":"PloS one"},{"key":"28_CR43","doi-asserted-by":"publisher","first-page":"3448","DOI":"10.1093\/bioinformatics\/bti551","volume":"21","author":"S Maere","year":"2005","unstructured":"Maere S, Heymans K, Kuiper M: BiNGO: a Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks. Bioinformatics. 2005, 21: 3448-3449. 10.1093\/bioinformatics\/bti551.","journal-title":"Bioinformatics"},{"key":"28_CR44","doi-asserted-by":"publisher","first-page":"1699","DOI":"10.1056\/NEJMp0808934","volume":"360","author":"JN Hirschhorn","year":"2009","unstructured":"Hirschhorn JN: Genomewide association studies\u2013illuminating biologic pathways. N Engl J Med. 2009, 360: 1699-1701. 10.1056\/NEJMp0808934.","journal-title":"N Engl J Med"},{"key":"28_CR45","unstructured":"A catalog of published genome-wide association studies. http:\/\/www.genome.gov\/gwastudies July 17th, 2012"},{"key":"28_CR46","doi-asserted-by":"publisher","first-page":"9362","DOI":"10.1073\/pnas.0903103106","volume":"106","author":"LA Hindorff","year":"2009","unstructured":"Hindorff LA, Sethupathy P, Junkins HA, Ramos EM, Mehta JP, Collins FS, Manolio TA: Potential etiologic and functional implications of genome-wide association loci for human diseases and traits. Proc Natl Acad Sci USA. 2009, 106: 9362-9367. 10.1073\/pnas.0903103106.","journal-title":"Proc Natl Acad Sci USA"},{"key":"28_CR47","doi-asserted-by":"publisher","first-page":"69","DOI":"10.1038\/nbt0108-69","volume":"26","author":"L Hakes","year":"2008","unstructured":"Hakes L, Pinney JW, Robertson DL, Lovell SC: Protein-protein interaction networks and biology\u2013what\u2019s the connection?. Nat Biotechnol. 2008, 26: 69-72. 10.1038\/nbt0108-69.","journal-title":"Nat Biotechnol"}],"container-title":["GigaScience"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/2047-217X-2-11.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/article\/10.1186\/2047-217X-2-11\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/academic.oup.com\/gigascience\/article-pdf\/2\/1\/1\/10833636\/13742_2013_Article_28.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2017,8,24]],"date-time":"2017-08-24T20:50:58Z","timestamp":1503607858000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/gigascience\/article-lookup\/doi\/10.1186\/2047-217X-2-11"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2013,8,30]]},"references-count":47,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2013,12]]}},"alternative-id":["28"],"URL":"https:\/\/doi.org\/10.1186\/2047-217x-2-11","relation":{},"ISSN":["2047-217X"],"issn-type":[{"value":"2047-217X","type":"electronic"}],"subject":[],"published":{"date-parts":[[2013,8,30]]},"article-number":"11"}}