{"id":"https://openalex.org/W2588962857","doi":"https://doi.org/10.1093/bioinformatics/btx068","title":"IRaPPA: information retrieval based integration of biophysical models for protein assembly selection","display_name":"IRaPPA: information retrieval based integration of biophysical models for protein assembly selection","publication_year":2017,"publication_date":"2017-02-14","ids":{"openalex":"https://openalex.org/W2588962857","doi":"https://doi.org/10.1093/bioinformatics/btx068","mag":"2588962857","pmid":"https://pubmed.ncbi.nlm.nih.gov/28200016"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btx068","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx068","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/12/1806/25331719/btx068.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/33/12/1806/25331719/btx068.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5060836019","display_name":"Iain H. Moal","orcid":"https://orcid.org/0000-0002-4960-5487"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]},{"id":"https://openalex.org/I2799803557","display_name":"Barcelona Supercomputing Center","ror":"https://ror.org/05sd8tv96","country_code":"ES","type":"facility","lineage":["https://openalex.org/I2799803557","https://openalex.org/I9617848"]},{"id":"https://openalex.org/I87048295","display_name":"Wellcome Trust","ror":"https://ror.org/029chgv08","country_code":"GB","type":"nonprofit","lineage":["https://openalex.org/I87048295"]},{"id":"https://openalex.org/I9617848","display_name":"Universitat Polit\u00e8cnica de Catalunya","ror":"https://ror.org/03mb6wj31","country_code":"ES","type":"education","lineage":["https://openalex.org/I9617848"]}],"countries":["ES","GB"],"is_corresponding":true,"raw_author_name":"Iain H Moal","raw_affiliation_strings":["European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK","Life Science Department, Joint BSC-IRB Research Program in Computational Biology, Barcelona Supercomputing Center, Barcelona, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK","institution_ids":["https://openalex.org/I1303153112","https://openalex.org/I87048295"]},{"raw_affiliation_string":"Life Science Department, Joint BSC-IRB Research Program in Computational Biology, Barcelona Supercomputing Center, Barcelona, Spain","institution_ids":["https://openalex.org/I2799803557","https://openalex.org/I9617848"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023132821","display_name":"Didier Barradas\u2010Bautista","orcid":"https://orcid.org/0000-0002-6464-6607"},"institutions":[{"id":"https://openalex.org/I2799803557","display_name":"Barcelona Supercomputing Center","ror":"https://ror.org/05sd8tv96","country_code":"ES","type":"facility","lineage":["https://openalex.org/I2799803557","https://openalex.org/I9617848"]},{"id":"https://openalex.org/I9617848","display_name":"Universitat Polit\u00e8cnica de Catalunya","ror":"https://ror.org/03mb6wj31","country_code":"ES","type":"education","lineage":["https://openalex.org/I9617848"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Didier Barradas-Bautista","raw_affiliation_strings":["Life Science Department, Joint BSC-IRB Research Program in Computational Biology, Barcelona Supercomputing Center, Barcelona, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Life Science Department, Joint BSC-IRB Research Program in Computational Biology, Barcelona Supercomputing Center, Barcelona, Spain","institution_ids":["https://openalex.org/I2799803557","https://openalex.org/I9617848"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5012374366","display_name":"Brian Jim\u00e9nez\u2010Garc\u00eda","orcid":"https://orcid.org/0000-0001-7786-2109"},"institutions":[{"id":"https://openalex.org/I2799803557","display_name":"Barcelona Supercomputing Center","ror":"https://ror.org/05sd8tv96","country_code":"ES","type":"facility","lineage":["https://openalex.org/I2799803557","https://openalex.org/I9617848"]},{"id":"https://openalex.org/I9617848","display_name":"Universitat Polit\u00e8cnica de Catalunya","ror":"https://ror.org/03mb6wj31","country_code":"ES","type":"education","lineage":["https://openalex.org/I9617848"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Brian Jim\u00e9nez-Garc\u00eda","raw_affiliation_strings":["Life Science Department, Joint BSC-IRB Research Program in Computational Biology, Barcelona Supercomputing Center, Barcelona, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Life Science Department, Joint BSC-IRB Research Program in Computational Biology, Barcelona Supercomputing Center, Barcelona, Spain","institution_ids":["https://openalex.org/I2799803557","https://openalex.org/I9617848"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003667131","display_name":"Mieczyslaw Torchala","orcid":null},"institutions":[{"id":"https://openalex.org/I2801081054","display_name":"The Francis Crick Institute","ror":"https://ror.org/04tnbqb63","country_code":"GB","type":"facility","lineage":["https://openalex.org/I2801081054"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Mieczyslaw Torchala","raw_affiliation_strings":["Biomolecular Modelling Laboratory, The Francis Crick Institute, London, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biomolecular Modelling Laboratory, The Francis Crick Institute, London, UK","institution_ids":["https://openalex.org/I2801081054"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011048242","display_name":"Arjan van der Velde","orcid":"https://orcid.org/0000-0003-1086-0859"},"institutions":[{"id":"https://openalex.org/I111088046","display_name":"Boston University","ror":"https://ror.org/05qwgg493","country_code":"US","type":"education","lineage":["https://openalex.org/I111088046"]},{"id":"https://openalex.org/I166722992","display_name":"University of Massachusetts Chan Medical School","ror":"https://ror.org/0464eyp60","country_code":"US","type":"education","lineage":["https://openalex.org/I166722992"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Arjan van der Velde","raw_affiliation_strings":["Bioinformatics Program, Boston University, Boston, MA, USA","Program in Bioinformatics and Integrative Biology, University of Massachusetts Medical School, Worcester, MA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Program, Boston University, Boston, MA, USA","institution_ids":["https://openalex.org/I111088046"]},{"raw_affiliation_string":"Program in Bioinformatics and Integrative Biology, University of Massachusetts Medical School, Worcester, MA, USA","institution_ids":["https://openalex.org/I166722992"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065844672","display_name":"Thom Vreven","orcid":"https://orcid.org/0000-0003-3413-806X"},"institutions":[{"id":"https://openalex.org/I166722992","display_name":"University of Massachusetts Chan Medical School","ror":"https://ror.org/0464eyp60","country_code":"US","type":"education","lineage":["https://openalex.org/I166722992"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Thom Vreven","raw_affiliation_strings":["Program in Bioinformatics and Integrative Biology, University of Massachusetts Medical School, Worcester, MA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Program in Bioinformatics and Integrative Biology, University of Massachusetts Medical School, Worcester, MA, USA","institution_ids":["https://openalex.org/I166722992"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5084369008","display_name":"Zhiping Weng","orcid":"https://orcid.org/0000-0002-3032-7966"},"institutions":[{"id":"https://openalex.org/I166722992","display_name":"University of Massachusetts Chan Medical School","ror":"https://ror.org/0464eyp60","country_code":"US","type":"education","lineage":["https://openalex.org/I166722992"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Zhiping Weng","raw_affiliation_strings":["Program in Bioinformatics and Integrative Biology, University of Massachusetts Medical School, Worcester, MA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Program in Bioinformatics and Integrative Biology, University of Massachusetts Medical School, Worcester, MA, USA","institution_ids":["https://openalex.org/I166722992"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5032952249","display_name":"Paul A. Bates","orcid":"https://orcid.org/0000-0003-0621-0925"},"institutions":[{"id":"https://openalex.org/I2801081054","display_name":"The Francis Crick Institute","ror":"https://ror.org/04tnbqb63","country_code":"GB","type":"facility","lineage":["https://openalex.org/I2801081054"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Paul A Bates","raw_affiliation_strings":["Biomolecular Modelling Laboratory, The Francis Crick Institute, London, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biomolecular Modelling Laboratory, The Francis Crick Institute, London, UK","institution_ids":["https://openalex.org/I2801081054"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5021117369","display_name":"Juan Fern\u00e1ndez\u2010Recio","orcid":"https://orcid.org/0000-0002-3986-7686"},"institutions":[{"id":"https://openalex.org/I2799803557","display_name":"Barcelona Supercomputing Center","ror":"https://ror.org/05sd8tv96","country_code":"ES","type":"facility","lineage":["https://openalex.org/I2799803557","https://openalex.org/I9617848"]},{"id":"https://openalex.org/I9617848","display_name":"Universitat Polit\u00e8cnica de Catalunya","ror":"https://ror.org/03mb6wj31","country_code":"ES","type":"education","lineage":["https://openalex.org/I9617848"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Juan Fern\u00e1ndez-Recio","raw_affiliation_strings":["Life Science Department, Joint BSC-IRB Research Program in Computational Biology, Barcelona Supercomputing Center, Barcelona, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Life Science Department, Joint BSC-IRB Research Program in Computational Biology, Barcelona Supercomputing Center, Barcelona, Spain","institution_ids":["https://openalex.org/I2799803557","https://openalex.org/I9617848"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5060836019"],"corresponding_institution_ids":["https://openalex.org/I1303153112","https://openalex.org/I2799803557","https://openalex.org/I87048295","https://openalex.org/I9617848"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":1.8243,"has_fulltext":false,"cited_by_count":42,"citation_normalized_percentile":{"value":0.85207547,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"33","issue":"12","first_page":"1806","last_page":"1813"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.6797000169754028,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.6797000169754028,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.06759999692440033,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.04960000142455101,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7419083714485168},{"id":"https://openalex.org/keywords/pipeline","display_name":"Pipeline (software)","score":0.5358648896217346},{"id":"https://openalex.org/keywords/ranking","display_name":"Ranking (information retrieval)","score":0.520213782787323},{"id":"https://openalex.org/keywords/selection","display_name":"Selection (genetic algorithm)","score":0.4721947908401489},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.436631441116333},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.43012842535972595},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.4210273027420044},{"id":"https://openalex.org/keywords/protein-function","display_name":"Protein function","score":0.41080939769744873},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.394198477268219},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.38078999519348145},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3758610486984253},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.3256564736366272},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.18296194076538086},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.17674818634986877},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.15467065572738647},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.10516732931137085},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.09282928705215454},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.0726989209651947}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7419083714485168},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.5358648896217346},{"id":"https://openalex.org/C189430467","wikidata":"https://www.wikidata.org/wiki/Q7293293","display_name":"Ranking (information retrieval)","level":2,"score":0.520213782787323},{"id":"https://openalex.org/C81917197","wikidata":"https://www.wikidata.org/wiki/Q628760","display_name":"Selection (genetic algorithm)","level":2,"score":0.4721947908401489},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.436631441116333},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.43012842535972595},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.4210273027420044},{"id":"https://openalex.org/C2986374874","wikidata":"https://www.wikidata.org/wiki/Q8054","display_name":"Protein function","level":3,"score":0.41080939769744873},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.394198477268219},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.38078999519348145},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3758610486984253},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3256564736366272},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.18296194076538086},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.17674818634986877},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.15467065572738647},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.10516732931137085},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.09282928705215454},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.0726989209651947}],"mesh":[{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":8,"locations":[{"id":"doi:10.1093/bioinformatics/btx068","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx068","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/12/1806/25331719/btx068.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:28200016","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/28200016","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:dnet:upcommonspor::3ccc077d27154409bd88d51f3970f6c8","is_oa":false,"landing_page_url":"http://hdl.handle.net/2117/106834","pdf_url":null,"source":{"id":"https://openalex.org/S4306402641","display_name":"LA Referencia (Red Federada de Repositorios Institucionales de Publicaciones Cient\u00edficas)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4383465926","host_organization_name":"LA Referencia","host_organization_lineage":["https://openalex.org/I4383465926"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:upcommons.upc.edu:2117/106834","is_oa":false,"landing_page_url":"https://hdl.handle.net/2117/106834","pdf_url":null,"source":{"id":"https://openalex.org/S4377196262","display_name":"UPCommons institutional repository (Universitat Polit\u00e8cnica de Catalunya)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I9617848","host_organization_name":"Universitat Polit\u00e8cnica de Catalunya","host_organization_lineage":["https://openalex.org/I9617848"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"Article"},{"id":"pmh:oai:escholarship.umassmed.edu:bioinformatics_pubs-1115","is_oa":true,"landing_page_url":"https://escholarship.umassmed.edu/bioinformatics_pubs/108","pdf_url":null,"source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Program in Bioinformatics and Integrative Biology Publications","raw_type":"text"},{"id":"pmh:oai:europepmc.org:4687349","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5783285","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:figshare.com:article/13110305","is_oa":true,"landing_page_url":"https://figshare.com/articles/journal_contribution/IRaPPA_information_retrieval_based_integration_of_biophysical_models_for_protein_assembly_selection/13110305","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:portal.dialnet.es:doc/5da053592999523b6cbf69fc","is_oa":true,"landing_page_url":"https://investigacion.unirioja.es/documentos/5da053592999523b6cbf69fc","pdf_url":null,"source":{"id":"https://openalex.org/S4306402551","display_name":"RIUR (Universidad de La Rioja)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I3032752892","host_organization_name":"Universidad Internacional de La Rioja","host_organization_lineage":["https://openalex.org/I3032752892"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btx068","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx068","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/12/1806/25331719/btx068.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G155194203","display_name":null,"funder_award_id":"R01 GM116960","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G1752592283","display_name":null,"funder_award_id":"10748","funder_id":"https://openalex.org/F4320319985","funder_display_name":"Cancer Research UK"},{"id":"https://openalex.org/G239938989","display_name":null,"funder_award_id":"A10748","funder_id":"https://openalex.org/F4320319985","funder_display_name":"Cancer Research UK"},{"id":"https://openalex.org/G2981976370","display_name":"Elucidating the evolutionary mechanisms shaping cell signalling networks","funder_award_id":"BB/N011600/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G6962551802","display_name":null,"funder_award_id":"FC001003","funder_id":"https://openalex.org/F4320311904","funder_display_name":"Wellcome Trust"},{"id":"https://openalex.org/G7894009206","display_name":null,"funder_award_id":"BB/N011600/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G8247244255","display_name":null,"funder_award_id":"R01 GM116960","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320311904","display_name":"Wellcome Trust","ror":"https://ror.org/029chgv08"},{"id":"https://openalex.org/F4320314023","display_name":"European Molecular Biology Laboratory","ror":"https://ror.org/050589e39"},{"id":"https://openalex.org/F4320319985","display_name":"Cancer Research UK","ror":"https://ror.org/054225q67"},{"id":"https://openalex.org/F4320321739","display_name":"Consejo Nacional de Ciencia y Tecnolog\u00eda","ror":"https://ror.org/059ex5q34"},{"id":"https://openalex.org/F4320321837","display_name":"Ministerio de Econom\u00eda y Competitividad","ror":"https://ror.org/034900433"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320334626","display_name":"Medical Research Council","ror":"https://ror.org/03x94j517"},{"id":"https://openalex.org/F4320334629","display_name":"Biotechnology and Biological Sciences Research Council","ror":"https://ror.org/00cwqg982"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2588962857.pdf"},"referenced_works_count":41,"referenced_works":["https://openalex.org/W1030883578","https://openalex.org/W1537662695","https://openalex.org/W1915490970","https://openalex.org/W1965379872","https://openalex.org/W1983851480","https://openalex.org/W1984216675","https://openalex.org/W1996078098","https://openalex.org/W2005303195","https://openalex.org/W2017117646","https://openalex.org/W2018410079","https://openalex.org/W2035720976","https://openalex.org/W2036309115","https://openalex.org/W2037412278","https://openalex.org/W2040227016","https://openalex.org/W2047221353","https://openalex.org/W2070771761","https://openalex.org/W2073911195","https://openalex.org/W2083734879","https://openalex.org/W2100025509","https://openalex.org/W2109629162","https://openalex.org/W2129454543","https://openalex.org/W2133712572","https://openalex.org/W2133791465","https://openalex.org/W2136777954","https://openalex.org/W2137885918","https://openalex.org/W2138333863","https://openalex.org/W2140522686","https://openalex.org/W2140671537","https://openalex.org/W2145154167","https://openalex.org/W2148356001","https://openalex.org/W2149500199","https://openalex.org/W2152409953","https://openalex.org/W2153731681","https://openalex.org/W2155653061","https://openalex.org/W2160544821","https://openalex.org/W2160868144","https://openalex.org/W2217908275","https://openalex.org/W2508425869","https://openalex.org/W2912934387","https://openalex.org/W2915344963","https://openalex.org/W4212883601"],"related_works":["https://openalex.org/W2188500270","https://openalex.org/W2303858293","https://openalex.org/W3037187668","https://openalex.org/W2798198862","https://openalex.org/W2915512527","https://openalex.org/W51364034","https://openalex.org/W2793336762","https://openalex.org/W2091548507","https://openalex.org/W2368816706","https://openalex.org/W1494981348"],"abstract_inverted_index":{"MOTIVATION:":[0],"In":[1],"order":[2],"to":[3,8,35,109,125,132],"function,":[4],"proteins":[5,28],"frequently":[6],"bind":[7],"one":[9],"another":[10],"and":[11,37,89,130,157],"form":[12],"3D":[13],"assemblies.":[14],"Knowledge":[15],"of":[16,20,26,41,52,58,64,104,127],"the":[17,39,47,56,102,119,135,146],"atomic":[18],"details":[19],"these":[21],"structures":[22,60,106],"helps":[23],"our":[24],"understanding":[25],"how":[27,31],"work":[29],"together,":[30],"mutations":[32],"can":[33],"lead":[34],"disease,":[36],"facilitates":[38],"designing":[40],"drugs":[42],"which":[43],"prevent":[44],"or":[45],"mimic":[46],"interaction.":[48],"RESULTS:":[49],"Atomic":[50],"modeling":[51],"protein-protein":[53],"interactions":[54],"requires":[55],"selection":[57],"near-native":[59,105,116],"from":[61],"a":[62,94,115],"set":[63],"docked":[65],"poses":[66],"based":[67],"on":[68,166],"their":[69],"calculable":[70],"properties.":[71,98],"By":[72],"considering":[73],"this":[74],"as":[75],"an":[76],"information":[77],"retrieval":[78],"problem,":[79],"we":[80],"have":[81],"adapted":[82],"methods":[83],"developed":[84],"for":[85,123],"Internet":[86],"search":[87],"ranking":[88],"electoral":[90],"voting":[91],"into":[92],"IRaPPA,":[93],"pipeline":[95],"integrating":[96],"biophysical":[97],"The":[99],"approach":[100],"enhances":[101],"identification":[103],"when":[107],"applied":[108],"four":[110],"docking":[111],"methods,":[112],"resulting":[113],"in":[114,118,134,145],"appearing":[117],"top":[120,136],"10":[121],"solutions":[122],"up":[124,131],"50%":[126],"complexes":[128],"benchmarked,":[129],"70%":[133],"100.":[137],"AVAILABILITY":[138],"AND":[139],"IMPLEMENTATION:":[140],"IRaPPA":[141],"has":[142],"been":[143],"implemented":[144],"SwarmDock":[147],"server":[148,153,159],"(":[149,154,160],"http://bmm.crick.ac.uk/\u223cSwarmDock/":[150],"),":[151,162],"pyDock":[152],"http://life.bsc.es/pid/pydockrescoring/":[155],")":[156],"ZDOCK":[158],"http://zdock.umassmed.edu/":[161],"with":[163],"code":[164],"available":[165,175],"request.":[167],"CONTACT:":[168],"moal@ebi.ac.uk.":[169],"SUPPLEMENTARY":[170],"INFORMATION:":[171],"Supplementary":[172],"data":[173],"are":[174],"at":[176],"Bioinformatics":[177],"online.":[178]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":4},{"year":2022,"cited_by_count":5},{"year":2021,"cited_by_count":11},{"year":2020,"cited_by_count":4},{"year":2019,"cited_by_count":5},{"year":2018,"cited_by_count":8},{"year":2017,"cited_by_count":1}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}
