{"id":"https://openalex.org/W2006049177","doi":"https://doi.org/10.1145/1854776.1854878","title":"Using support vector machine for improving protein-protein interaction prediction utilizing domain interactions","display_name":"Using support vector machine for improving protein-protein interaction prediction utilizing domain interactions","publication_year":2010,"publication_date":"2010-08-02","ids":{"openalex":"https://openalex.org/W2006049177","doi":"https://doi.org/10.1145/1854776.1854878","mag":"2006049177"},"language":"en","primary_location":{"id":"doi:10.1145/1854776.1854878","is_oa":false,"landing_page_url":"https://doi.org/10.1145/1854776.1854878","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the First ACM International Conference on Bioinformatics and Computational Biology","raw_type":"proceedings-article"},"type":"conference-paper","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5103547404","display_name":"Mudita Singhal","orcid":null},"institutions":[{"id":"https://openalex.org/I142606810","display_name":"Pacific Northwest National Laboratory","ror":"https://ror.org/05h992307","country_code":"US","type":"facility","lineage":["https://openalex.org/I1325736334","https://openalex.org/I1330989302","https://openalex.org/I142606810","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mudita Singhal","raw_affiliation_strings":["Pacific Northwest National Lab, Richland, WA","Pacific Northwest National Lab. Richland, WA#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Pacific Northwest National Lab, Richland, WA","institution_ids":["https://openalex.org/I142606810"]},{"raw_affiliation_string":"Pacific Northwest National Lab. Richland, WA#TAB#","institution_ids":["https://openalex.org/I142606810"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5113935679","display_name":"Anuj Shah","orcid":null},"institutions":[{"id":"https://openalex.org/I142606810","display_name":"Pacific Northwest National Laboratory","ror":"https://ror.org/05h992307","country_code":"US","type":"facility","lineage":["https://openalex.org/I1325736334","https://openalex.org/I1330989302","https://openalex.org/I142606810","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Anuj R. Shah","raw_affiliation_strings":["Pacific Northwest National Lab, Richland, WA","Pacific Northwest National Lab. Richland, WA#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Pacific Northwest National Lab, Richland, WA","institution_ids":["https://openalex.org/I142606810"]},{"raw_affiliation_string":"Pacific Northwest National Lab. Richland, WA#TAB#","institution_ids":["https://openalex.org/I142606810"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089245822","display_name":"Joshua Adkins","orcid":"https://orcid.org/0000-0003-0399-0700"},"institutions":[{"id":"https://openalex.org/I142606810","display_name":"Pacific Northwest National Laboratory","ror":"https://ror.org/05h992307","country_code":"US","type":"facility","lineage":["https://openalex.org/I1325736334","https://openalex.org/I1330989302","https://openalex.org/I142606810","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Joshua N. Adkins","raw_affiliation_strings":["Pacific Northwest National Lab, Richland, WA","Pacific Northwest National Lab. Richland, WA#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Pacific Northwest National Lab, Richland, WA","institution_ids":["https://openalex.org/I142606810"]},{"raw_affiliation_string":"Pacific Northwest National Lab. Richland, WA#TAB#","institution_ids":["https://openalex.org/I142606810"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101575389","display_name":"Roslyn N. Brown","orcid":"https://orcid.org/0000-0002-3816-0195"},"institutions":[{"id":"https://openalex.org/I142606810","display_name":"Pacific Northwest National Laboratory","ror":"https://ror.org/05h992307","country_code":"US","type":"facility","lineage":["https://openalex.org/I1325736334","https://openalex.org/I1330989302","https://openalex.org/I142606810","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Roslyn Brown","raw_affiliation_strings":["Pacific Northwest National Lab, Richland, WA","Pacific Northwest National Lab. Richland, WA#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Pacific Northwest National Lab, Richland, WA","institution_ids":["https://openalex.org/I142606810"]},{"raw_affiliation_string":"Pacific Northwest National Lab. Richland, WA#TAB#","institution_ids":["https://openalex.org/I142606810"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I142606810"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.11158358,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"537","last_page":"545"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9965000152587891,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9965000152587891,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9923999905586243,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.991100013256073,"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/protein\u2013protein-interaction","display_name":"Protein\u2013protein interaction","score":0.7280392646789551},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6687408089637756},{"id":"https://openalex.org/keywords/domain","display_name":"Domain (mathematical analysis)","score":0.5774422883987427},{"id":"https://openalex.org/keywords/support-vector-machine","display_name":"Support vector machine","score":0.5470930933952332},{"id":"https://openalex.org/keywords/sensitivity","display_name":"Sensitivity (control systems)","score":0.4975719749927521},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.45212438702583313},{"id":"https://openalex.org/keywords/measure","display_name":"Measure (data warehouse)","score":0.4322283864021301},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3996196687221527},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.35061854124069214},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.16466763615608215},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.15625986456871033},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.08309304714202881}],"concepts":[{"id":"https://openalex.org/C11804247","wikidata":"https://www.wikidata.org/wiki/Q896177","display_name":"Protein\u2013protein interaction","level":2,"score":0.7280392646789551},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6687408089637756},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.5774422883987427},{"id":"https://openalex.org/C12267149","wikidata":"https://www.wikidata.org/wiki/Q282453","display_name":"Support vector machine","level":2,"score":0.5470930933952332},{"id":"https://openalex.org/C21200559","wikidata":"https://www.wikidata.org/wiki/Q7451068","display_name":"Sensitivity (control systems)","level":2,"score":0.4975719749927521},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.45212438702583313},{"id":"https://openalex.org/C2780009758","wikidata":"https://www.wikidata.org/wiki/Q6804172","display_name":"Measure (data warehouse)","level":2,"score":0.4322283864021301},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3996196687221527},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.35061854124069214},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.16466763615608215},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.15625986456871033},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.08309304714202881},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C24326235","wikidata":"https://www.wikidata.org/wiki/Q126095","display_name":"Electronic engineering","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/1854776.1854878","is_oa":false,"landing_page_url":"https://doi.org/10.1145/1854776.1854878","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the First ACM International Conference on Bioinformatics and Computational Biology","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2251564489","display_name":null,"funder_award_id":"Y1-AI8401-01","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G4847758560","display_name":null,"funder_award_id":"Y1-AI-8401-01","funder_id":"https://openalex.org/F4320337506","funder_display_name":"Advanced Scientific Computing Research"},{"id":"https://openalex.org/G6048654274","display_name":null,"funder_award_id":"Y1-AI-8401-01","funder_id":"https://openalex.org/F4320306085","funder_display_name":"U.S. Department of Health and Human Services"}],"funders":[{"id":"https://openalex.org/F4320306085","display_name":"U.S. Department of Health and Human Services","ror":"https://ror.org/033jnv181"},{"id":"https://openalex.org/F4320306250","display_name":"Battelle","ror":"https://ror.org/01h5tnr73"},{"id":"https://openalex.org/F4320332359","display_name":"Office of Science","ror":"https://ror.org/00mmn6b08"},{"id":"https://openalex.org/F4320337355","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69"},{"id":"https://openalex.org/F4320337506","display_name":"Advanced Scientific Computing Research","ror":"https://ror.org/0012c7r22"},{"id":"https://openalex.org/F4320337509","display_name":"Biological and Environmental Research","ror":"https://ror.org/0114b2m14"},{"id":"https://openalex.org/F4320338354","display_name":"Pacific Northwest National Laboratory","ror":"https://ror.org/05h992307"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":62,"referenced_works":["https://openalex.org/W740415","https://openalex.org/W156870914","https://openalex.org/W1463297302","https://openalex.org/W1542652324","https://openalex.org/W1820604712","https://openalex.org/W1843018858","https://openalex.org/W1870162763","https://openalex.org/W1879637501","https://openalex.org/W1884509322","https://openalex.org/W1966421023","https://openalex.org/W1974139890","https://openalex.org/W1980334039","https://openalex.org/W1983913286","https://openalex.org/W1995932087","https://openalex.org/W1996328526","https://openalex.org/W2004163477","https://openalex.org/W2016788761","https://openalex.org/W2037036397","https://openalex.org/W2045131140","https://openalex.org/W2048559409","https://openalex.org/W2057885377","https://openalex.org/W2065304353","https://openalex.org/W2069795071","https://openalex.org/W2080922074","https://openalex.org/W2084619201","https://openalex.org/W2085555089","https://openalex.org/W2088216962","https://openalex.org/W2099862356","https://openalex.org/W2099982459","https://openalex.org/W2102110363","https://openalex.org/W2107340752","https://openalex.org/W2107424557","https://openalex.org/W2107811186","https://openalex.org/W2109715166","https://openalex.org/W2112865076","https://openalex.org/W2113654464","https://openalex.org/W2114374137","https://openalex.org/W2114719101","https://openalex.org/W2117035344","https://openalex.org/W2121507105","https://openalex.org/W2126991359","https://openalex.org/W2127073167","https://openalex.org/W2127347907","https://openalex.org/W2127637605","https://openalex.org/W2132582966","https://openalex.org/W2133654213","https://openalex.org/W2136957665","https://openalex.org/W2141885858","https://openalex.org/W2142337435","https://openalex.org/W2144810256","https://openalex.org/W2146312020","https://openalex.org/W2147068690","https://openalex.org/W2148507707","https://openalex.org/W2149310258","https://openalex.org/W2153294290","https://openalex.org/W2156909104","https://openalex.org/W2164021883","https://openalex.org/W2164028851","https://openalex.org/W2164391585","https://openalex.org/W2167869241","https://openalex.org/W4210400672","https://openalex.org/W4252706339"],"related_works":["https://openalex.org/W4255837520","https://openalex.org/W2090763504","https://openalex.org/W2387011115","https://openalex.org/W148178222","https://openalex.org/W2104657898","https://openalex.org/W1948992892","https://openalex.org/W1886884218","https://openalex.org/W4234808182","https://openalex.org/W2107811186","https://openalex.org/W2145427519"],"abstract_inverted_index":{"Understanding":[0],"protein":[1,45,77,90],"interactions":[2,24,46],"is":[3,48,141],"essential":[4],"to":[5,75,87,145],"gain":[6],"insights":[7],"into":[8],"the":[9,13,119,134,137,151],"biological":[10],"processes":[11],"at":[12],"whole":[14],"cell":[15],"level.":[16],"The":[17],"high-throughput":[18],"experimental":[19],"techniques":[20],"for":[21,43,51,60],"determining":[22],"protein-protein":[23],"(PPI)":[25],"are":[26],"error":[27],"prone":[28],"and":[29,108,121,136],"expensive":[30],"with":[31],"low":[32],"overlap":[33],"amongst":[34],"them.":[35],"Although":[36],"several":[37],"computational":[38],"methods":[39,95],"have":[40],"been":[41],"proposed":[42],"predicting":[44],"there":[47],"definite":[49],"room":[50],"improvement.":[52],"Here":[53],"we":[54],"present":[55],"DomainSVM,":[56],"a":[57,70,89,112],"predictive":[58],"method":[59,80],"PPI":[61,97,148],"that":[62],"uses":[63],"computationally":[64],"inferred":[65],"domain-domain":[66],"interaction":[67],"values":[68,110],"in":[69,111,124,143,150],"Support":[71],"Vector":[72],"Machine":[73],"framework":[74],"predict":[76,88],"interactions.":[78],"DomainSVM":[79],"utilizes":[81],"evidence":[82],"of":[83,96],"multiple":[84],"interacting":[85],"domains":[86],"interaction.":[91],"It":[92],"outperforms":[93],"existing":[94],"prediction":[98],"by":[99],"achieving":[100],"very":[101],"high":[102],"explanation":[103],"ratios,":[104],"precision,":[105],"specificity,":[106],"sensitivity":[107],"F-measure":[109],"10":[113],"fold":[114],"cross-validation":[115],"study":[116,129],"conducted":[117],"on":[118,133],"positive":[120,135],"negative":[122,138],"PPIs":[123],"yeast.":[125],"A":[126],"functional":[127],"comparison":[128],"using":[130],"GO":[131],"annotations":[132],"test":[139],"sets":[140],"presented":[142],"addition":[144],"discussing":[146],"novel":[147],"predictions":[149],"pathogen":[152],"Salmonella":[153],"Typhimurium.":[154]},"counts_by_year":[],"updated_date":"2026-08-01T09:00:35.917206","created_date":"2025-10-10T00:00:00"}
