{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2024,9,6]],"date-time":"2024-09-06T09:52:13Z","timestamp":1725616333858},"publisher-location":"New York, NY, USA","reference-count":51,"publisher":"ACM","content-domain":{"domain":["dl.acm.org"],"crossmark-restriction":true},"short-container-title":[],"published-print":{"date-parts":[[2014,9,20]]},"DOI":"10.1145\/2649387.2649397","type":"proceedings-article","created":{"date-parts":[[2014,10,24]],"date-time":"2014-10-24T15:29:22Z","timestamp":1414164562000},"page":"23-32","update-policy":"http:\/\/dx.doi.org\/10.1145\/crossmark-policy","source":"Crossref","is-referenced-by-count":1,"title":["Docking features for predicting binding loss due to protein mutation"],"prefix":"10.1145","author":[{"given":"Norman","family":"Goodacre","sequence":"first","affiliation":[{"name":"Georgetown University Medical Center, Washington, DC"}]},{"given":"Nathan","family":"Edwards","sequence":"additional","affiliation":[{"name":"Georgetown University Medical Center, Washington, DC"}]},{"given":"Mark","family":"Danielsen","sequence":"additional","affiliation":[{"name":"Georgetown University Medical Center, Washington, DC"}]},{"given":"Peter","family":"Uetz","sequence":"additional","affiliation":[{"name":"Virginia Commonwealth University, Richmond, VA"}]},{"given":"Cathy","family":"Wu","sequence":"additional","affiliation":[{"name":"Georgetown University Medical Center, Washington, DC and University of Delaware, Newark, DE"}]}],"member":"320","published-online":{"date-parts":[[2014,9,20]]},"reference":[{"key":"e_1_3_2_1_1_1","volume-title":"Next generation tools for the annotation of human SNPs. Briefings in bioinformatics, 10(1), 35--52","author":"Karchin R.","year":"2009","unstructured":"Karchin , R. ( 2009 ). Next generation tools for the annotation of human SNPs. Briefings in bioinformatics, 10(1), 35--52 . Karchin, R. (2009). Next generation tools for the annotation of human SNPs. Briefings in bioinformatics, 10(1), 35--52."},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_2_1","DOI":"10.1093\/bioinformatics\/bts489"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_3_1","DOI":"10.1097\/00126334-200108150-00009"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_4_1","DOI":"10.1056\/NEJMoa0802905"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_5_1","DOI":"10.1038\/nature07159"},{"key":"e_1_3_2_1_6_1","volume-title":"Molecular architectures of trimeric SIV and HIV-1 envelope glycoproteins on intact viruses: strain-dependent variation in quaternary structure. PLoS pathogens, 6(12), e1001249","author":"White T. A.","year":"2010","unstructured":"White , T. A. , Bartesaghi , A. , Borgnia , M. J. , Meyerson , J. R. , de la Cruz , M. J. V. , Bess , J. W.,. .. & Subramaniam , S. ( 2010 ). Molecular architectures of trimeric SIV and HIV-1 envelope glycoproteins on intact viruses: strain-dependent variation in quaternary structure. PLoS pathogens, 6(12), e1001249 . White, T. A., Bartesaghi, A., Borgnia, M. J., Meyerson, J. R., de la Cruz, M. J. V., Bess, J. W.,... & Subramaniam, S. (2010). Molecular architectures of trimeric SIV and HIV-1 envelope glycoproteins on intact viruses: strain-dependent variation in quaternary structure. PLoS pathogens, 6(12), e1001249."},{"key":"e_1_3_2_1_7_1","volume-title":"Catching HIV 'in the act'with 3D electron microscopy. Trends in microbiology, 21(8), 397--404","author":"Earl L. A.","year":"2013","unstructured":"Earl , L. A. , Lifson , J. D. , & Subramaniam , S. ( 2013 ). Catching HIV 'in the act'with 3D electron microscopy. Trends in microbiology, 21(8), 397--404 . Earl, L. A., Lifson, J. D., & Subramaniam, S. (2013). Catching HIV 'in the act'with 3D electron microscopy. Trends in microbiology, 21(8), 397--404."},{"key":"e_1_3_2_1_8_1","volume-title":"Three-dimensional reconstruction of protein networks provides insight into human genetic disease. Nature biotechnology, 30(2), 159--164","author":"Wang X.","year":"2012","unstructured":"Wang , X. , Wei , X. , Thijssen , B. , Das , J. , Lipkin , S. M. , & Yu , H. ( 2012 ). Three-dimensional reconstruction of protein networks provides insight into human genetic disease. Nature biotechnology, 30(2), 159--164 . Wang, X., Wei, X., Thijssen, B., Das, J., Lipkin, S. M., & Yu, H. (2012). Three-dimensional reconstruction of protein networks provides insight into human genetic disease. Nature biotechnology, 30(2), 159--164."},{"key":"e_1_3_2_1_9_1","volume-title":"Protein--protein interaction sites are hot spots for disease-associated nonsynonymous SNPs.Human mutation, 33(2), 359--363","author":"David A.","year":"2012","unstructured":"David , A. , Razali , R. , Wass , M. N. , & Sternberg , M. J. ( 2012 ). Protein--protein interaction sites are hot spots for disease-associated nonsynonymous SNPs.Human mutation, 33(2), 359--363 . David, A., Razali, R., Wass, M. N., & Sternberg, M. J. (2012). Protein--protein interaction sites are hot spots for disease-associated nonsynonymous SNPs.Human mutation, 33(2), 359--363."},{"key":"e_1_3_2_1_10_1","volume-title":"Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing (pp. 439--450)","author":"Ye Y.","year":"2005","unstructured":"Ye , Y. , Li , Z. , & Godzik , A. ( 2005 , December). Modeling and analyzing three-dimensional structures of human disease proteins . In Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing (pp. 439--450) . Ye, Y., Li, Z., & Godzik, A. (2005, December). Modeling and analyzing three-dimensional structures of human disease proteins. In Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing (pp. 439--450)."},{"key":"e_1_3_2_1_11_1","volume-title":"R9.","author":"Schuster-B\u00f6ckler B.","year":"2008","unstructured":"Schuster-B\u00f6ckler , B. , & Bateman , A. ( 2008 ). Protein interactions in human genetic diseases. Genome biology, 9(1) , R9. Schuster-B\u00f6ckler, B., & Bateman, A. (2008). Protein interactions in human genetic diseases. Genome biology, 9(1), R9."},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_12_1","DOI":"10.1006\/jmbi.2001.5255"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_13_1","DOI":"10.1126\/science.1219240"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_14_1","DOI":"10.1016\/j.jmb.2013.07.012"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_15_1","DOI":"10.1006\/jmbi.1996.0167"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_16_1","DOI":"10.1002\/prot.22830"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_17_1","DOI":"10.1002\/prot.22818"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_18_1","DOI":"10.1021\/ja026939x"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_19_1","DOI":"10.1073\/pnas.1101440108"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_20_1","DOI":"10.1093\/bioinformatics\/btt076"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_21_1","DOI":"10.1016\/j.jmb.2004.02.040"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_22_1","DOI":"10.1371\/journal.pone.0017695"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_23_1","DOI":"10.1021\/ct400295z"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_24_1","DOI":"10.1002\/prot.24337"},{"key":"e_1_3_2_1_25_1","volume-title":"The HADDOCK web server for data-driven biomolecular docking. Nature protocols, 5(5), 883--897","author":"De Vries S. J.","year":"2010","unstructured":"De Vries , S. J. , van Dijk , M. , & Bonvin , A. M. ( 2010 ). The HADDOCK web server for data-driven biomolecular docking. Nature protocols, 5(5), 883--897 . De Vries, S. J., van Dijk, M., & Bonvin, A. M. (2010). The HADDOCK web server for data-driven biomolecular docking. Nature protocols, 5(5), 883--897."},{"key":"e_1_3_2_1_26_1","volume-title":"Department of Biochemistry and Molecular Biology","author":"Hubbard S. J.","year":"1993","unstructured":"Hubbard , S. J. , & Thornton , J. M. ( 1993 ). Naccess. Computer Program , Department of Biochemistry and Molecular Biology , University College London , 2(1). Hubbard, S. J., & Thornton, J. M. (1993). Naccess. Computer Program, Department of Biochemistry and Molecular Biology, University College London, 2(1)."},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_27_1","DOI":"10.1002\/jcc.20084"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_28_1","DOI":"10.1006\/jmbi.1993.1170"},{"key":"e_1_3_2_1_29_1","volume-title":"Convergence and combination of methods in protein--protein docking. Current opinion in structural biology, 19(2), 164--170","author":"Vajda S.","year":"2009","unstructured":"Vajda , S. , & Kozakov , D. ( 2009 ). Convergence and combination of methods in protein--protein docking. Current opinion in structural biology, 19(2), 164--170 . Vajda, S., & Kozakov, D. (2009). Convergence and combination of methods in protein--protein docking. Current opinion in structural biology, 19(2), 164--170."},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_30_1","DOI":"10.1002\/prot.21442"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_31_1","DOI":"10.1002\/prot.22835"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_32_1","DOI":"10.1039\/c005060c"},{"key":"e_1_3_2_1_33_1","volume-title":"An improved general amino acid replacement matrix. Molecular biology and evolution, 25(7), 1307--1320","author":"Le S. Q.","year":"2008","unstructured":"Le , S. Q. , & Gascuel , O. ( 2008 ). An improved general amino acid replacement matrix. Molecular biology and evolution, 25(7), 1307--1320 . Le, S. Q., & Gascuel, O. (2008). An improved general amino acid replacement matrix. Molecular biology and evolution, 25(7), 1307--1320."},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_34_1","DOI":"10.1038\/sj.bjp.0707515"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_35_1","DOI":"10.1145\/1656274.1656278"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_36_1","DOI":"10.1023\/A:1010933404324"},{"key":"e_1_3_2_1_37_1","volume-title":"The HIV-1 Vpr coactivator induces a conformational change in TFIIB. FEBS letters, 450(3), 235--239","author":"Agostini I.","year":"1999","unstructured":"Agostini , I. , Navarro , J. M. , Bouhamdan , M. , Willetts , K. , Rey , F. , Spire , B. ,... & Sire , J. ( 1999 ). The HIV-1 Vpr coactivator induces a conformational change in TFIIB. FEBS letters, 450(3), 235--239 . Agostini, I., Navarro, J. M., Bouhamdan, M., Willetts, K., Rey, F., Spire, B.,... & Sire, J. (1999). The HIV-1 Vpr coactivator induces a conformational change in TFIIB. FEBS letters, 450(3), 235--239."},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_38_1","DOI":"10.1073\/pnas.0506924102"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_39_1","DOI":"10.1371\/journal.pone.0066273"},{"key":"e_1_3_2_1_40_1","volume-title":"Amino Acid Changes in Disease-Associated Variants Differ Radically from Variants Observed in the 1000 Genomes Project Dataset.PLoS computational biology, 9(12), e1003382","author":"de Beer T. A.","year":"2013","unstructured":"de Beer , T. A. , Laskowski , R. A. , Parks , S. L. , Sipos , B. , Goldman , N. , & Thornton , J. M. ( 2013 ). Amino Acid Changes in Disease-Associated Variants Differ Radically from Variants Observed in the 1000 Genomes Project Dataset.PLoS computational biology, 9(12), e1003382 . de Beer, T. A., Laskowski, R. A., Parks, S. L., Sipos, B., Goldman, N., & Thornton, J. M. (2013). Amino Acid Changes in Disease-Associated Variants Differ Radically from Variants Observed in the 1000 Genomes Project Dataset.PLoS computational biology, 9(12), e1003382."},{"key":"e_1_3_2_1_41_1","volume-title":"McKusick-Nathans Institute of Genetic Medicine","author":"Online Mendelian Inheritance","year":"2014","unstructured":"Online Mendelian Inheritance in Man, OMI M\u00ae . McKusick-Nathans Institute of Genetic Medicine , Johns Hopkins University (Baltimore , MD ), 5\/12\/ 2014 . World Wide Web URL: http:\/\/omim.org\/ Online Mendelian Inheritance in Man, OMIM\u00ae. McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University (Baltimore, MD), 5\/12\/2014. World Wide Web URL: http:\/\/omim.org\/"},{"key":"e_1_3_2_1_42_1","volume-title":"Elucidating Common Structural Features of Human Pathogenic Variations Using Large-Scale Atomic-Resolution Protein Networks. Human mutation, 35(5), 585--593","author":"Das J.","year":"2014","unstructured":"Das , J. , Lee , H. R. , Sagar , A. , Fragoza , R. , Liang , J. , Wei , X. ,... & Yu , H. ( 2014 ). Elucidating Common Structural Features of Human Pathogenic Variations Using Large-Scale Atomic-Resolution Protein Networks. Human mutation, 35(5), 585--593 . Das, J., Lee, H. R., Sagar, A., Fragoza, R., Liang, J., Wei, X.,... & Yu, H. (2014). Elucidating Common Structural Features of Human Pathogenic Variations Using Large-Scale Atomic-Resolution Protein Networks. Human mutation, 35(5), 585--593."},{"key":"e_1_3_2_1_43_1","volume-title":"W333--W339.","author":"Dehouck Y.","year":"2013","unstructured":"Dehouck , Y. , Kwasigroch , J. M. , Rooman , M. , & Gilis , D. ( 2013 ). BeAtMuSiC: prediction of changes in protein--protein binding affinity on mutations. Nucleic acids research, 41(W1) , W333--W339. Dehouck, Y., Kwasigroch, J. M., Rooman, M., & Gilis, D. (2013). BeAtMuSiC: prediction of changes in protein--protein binding affinity on mutations. Nucleic acids research, 41(W1), W333--W339."},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_44_1","DOI":"10.1093\/bioinformatics\/btp240"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_45_1","DOI":"10.1002\/prot.21396"},{"key":"e_1_3_2_1_46_1","volume-title":"Anatomy of hot spots in protein interfaces.Journal of molecular biology, 280(1), 1--9","author":"Bogan A. A.","year":"1998","unstructured":"Bogan , A. A. , & Thorn , K. S. ( 1998 ). Anatomy of hot spots in protein interfaces.Journal of molecular biology, 280(1), 1--9 Bogan, A. A., & Thorn, K. S. (1998). Anatomy of hot spots in protein interfaces.Journal of molecular biology, 280(1), 1--9"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_47_1","DOI":"10.1371\/journal.pone.0024657"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_48_1","DOI":"10.1002\/pro.580"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_49_1","DOI":"10.1093\/bioinformatics\/btq404"},{"doi-asserted-by":"publisher","key":"e_1_3_2_1_50_1","DOI":"10.1002\/prot.22987"},{"key":"e_1_3_2_1_51_1","volume-title":"Determining Effects of Non-synonymous SNPs on Protein-Protein Interactions using Supervised and Semi-supervised Learning. PLoS computational biology, 10(5), e1003592","author":"Zhao N.","year":"2014","unstructured":"Zhao , N. , Han , J. G. , Shyu , C. R. , & Korkin , D. ( 2014 ). Determining Effects of Non-synonymous SNPs on Protein-Protein Interactions using Supervised and Semi-supervised Learning. PLoS computational biology, 10(5), e1003592 . Zhao, N., Han, J. G., Shyu, C. R., & Korkin, D. (2014). Determining Effects of Non-synonymous SNPs on Protein-Protein Interactions using Supervised and Semi-supervised Learning. PLoS computational biology, 10(5), e1003592."}],"event":{"sponsor":["SIGBio ACM Special Interest Group on Bioinformatics"],"acronym":"BCB '14","name":"BCB '14: ACM-BCB '14","location":"Newport Beach California"},"container-title":["Proceedings of the 5th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics"],"original-title":[],"link":[{"URL":"https:\/\/dl.acm.org\/doi\/pdf\/10.1145\/2649387.2649397","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,1,9]],"date-time":"2023-01-09T22:33:04Z","timestamp":1673303584000},"score":1,"resource":{"primary":{"URL":"https:\/\/dl.acm.org\/doi\/10.1145\/2649387.2649397"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2014,9,20]]},"references-count":51,"alternative-id":["10.1145\/2649387.2649397","10.1145\/2649387"],"URL":"https:\/\/doi.org\/10.1145\/2649387.2649397","relation":{},"subject":[],"published":{"date-parts":[[2014,9,20]]},"assertion":[{"value":"2014-09-20","order":2,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}]}}