{"id":"https://openalex.org/W2798133167","doi":"https://doi.org/10.1186/s12918-018-0532-7","title":"Predicting and understanding comprehensive drug-drug interactions via semi-nonnegative matrix factorization","display_name":"Predicting and understanding comprehensive drug-drug interactions via semi-nonnegative matrix factorization","publication_year":2018,"publication_date":"2018-04-01","ids":{"openalex":"https://openalex.org/W2798133167","doi":"https://doi.org/10.1186/s12918-018-0532-7","mag":"2798133167","pmid":"https://pubmed.ncbi.nlm.nih.gov/29671393"},"language":"en","primary_location":{"id":"doi:10.1186/s12918-018-0532-7","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12918-018-0532-7","pdf_url":"https://bmcsystbiol.biomedcentral.com/track/pdf/10.1186/s12918-018-0532-7","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Systems Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"diamond","oa_url":"https://bmcsystbiol.biomedcentral.com/track/pdf/10.1186/s12918-018-0532-7","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5014009982","display_name":"Hui Yu","orcid":"https://orcid.org/0000-0002-5314-8127"},"institutions":[{"id":"https://openalex.org/I17145004","display_name":"Northwestern Polytechnical University","ror":"https://ror.org/01y0j0j86","country_code":"CN","type":"education","lineage":["https://openalex.org/I17145004"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Hui Yu","raw_affiliation_strings":["School of Computer Science, Northwestern Polytechnical University, Xi'an, China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science, Northwestern Polytechnical University, Xi'an, China","institution_ids":["https://openalex.org/I17145004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035772323","display_name":"Kui-Tao Mao","orcid":null},"institutions":[{"id":"https://openalex.org/I17145004","display_name":"Northwestern Polytechnical University","ror":"https://ror.org/01y0j0j86","country_code":"CN","type":"education","lineage":["https://openalex.org/I17145004"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Kui-Tao Mao","raw_affiliation_strings":["School of Computer Science, Northwestern Polytechnical University, Xi'an, China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science, Northwestern Polytechnical University, Xi'an, China","institution_ids":["https://openalex.org/I17145004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000609872","display_name":"Jian\u2010Yu Shi","orcid":"https://orcid.org/0000-0002-2303-273X"},"institutions":[{"id":"https://openalex.org/I17145004","display_name":"Northwestern Polytechnical University","ror":"https://ror.org/01y0j0j86","country_code":"CN","type":"education","lineage":["https://openalex.org/I17145004"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jian-Yu Shi","raw_affiliation_strings":["School of Life Sciences, Northwestern Polytechnical University, Xi'an, China. jianyushi@nwpu.edu.cn","School of Life Sciences, Northwestern Polytechnical University, Xi'an, China"],"affiliations":[{"raw_affiliation_string":"School of Life Sciences, Northwestern Polytechnical University, Xi'an, China. jianyushi@nwpu.edu.cn","institution_ids":[]},{"raw_affiliation_string":"School of Life Sciences, Northwestern Polytechnical University, Xi'an, China","institution_ids":["https://openalex.org/I17145004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022334521","display_name":"Hua Huang","orcid":"https://orcid.org/0000-0003-2587-1702"},"institutions":[{"id":"https://openalex.org/I17145004","display_name":"Northwestern Polytechnical University","ror":"https://ror.org/01y0j0j86","country_code":"CN","type":"education","lineage":["https://openalex.org/I17145004"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hua Huang","raw_affiliation_strings":["School of Software and Microelectronics, Northwestern Polytechnical University, Xi'an, China"],"affiliations":[{"raw_affiliation_string":"School of Software and Microelectronics, Northwestern Polytechnical University, Xi'an, China","institution_ids":["https://openalex.org/I17145004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017769599","display_name":"Zhi Chen","orcid":null},"institutions":[{"id":"https://openalex.org/I4210107571","display_name":"Jiangxi Provincial People's Hospital","ror":"https://ror.org/01dspcb60","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210107571"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhi Chen","raw_affiliation_strings":["Department of Critical Care Medicine, People's Hospital of Jiangxi Province, Nan Chang, China"],"affiliations":[{"raw_affiliation_string":"Department of Critical Care Medicine, People's Hospital of Jiangxi Province, Nan Chang, China","institution_ids":["https://openalex.org/I4210107571"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102020713","display_name":"Kai Dong","orcid":"https://orcid.org/0000-0002-3156-9035"},"institutions":[{"id":"https://openalex.org/I17145004","display_name":"Northwestern Polytechnical University","ror":"https://ror.org/01y0j0j86","country_code":"CN","type":"education","lineage":["https://openalex.org/I17145004"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Kai Dong","raw_affiliation_strings":["School of Life Sciences, Northwestern Polytechnical University, Xi'an, China"],"affiliations":[{"raw_affiliation_string":"School of Life Sciences, Northwestern Polytechnical University, Xi'an, China","institution_ids":["https://openalex.org/I17145004"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5110500992","display_name":"Siu\u2010Ming Yiu","orcid":null},"institutions":[{"id":"https://openalex.org/I889458895","display_name":"University of Hong Kong","ror":"https://ror.org/02zhqgq86","country_code":"HK","type":"education","lineage":["https://openalex.org/I889458895"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Siu-Ming Yiu","raw_affiliation_strings":["Department of Computer Science, The University of Hong Kong, Hong Kong, China"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, The University of Hong Kong, Hong Kong, China","institution_ids":["https://openalex.org/I889458895"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5014009982"],"corresponding_institution_ids":["https://openalex.org/I17145004"],"apc_list":null,"apc_paid":null,"fwci":5.9844,"has_fulltext":true,"cited_by_count":109,"citation_normalized_percentile":{"value":0.96886228,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":100},"biblio":{"volume":"12","issue":"S1","first_page":"14","last_page":"14"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9998999834060669,"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"}},"topics":[{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9998999834060669,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9535999894142151,"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/T12748","display_name":"Molecular spectroscopy and chirality","score":0.9376999735832214,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/drug","display_name":"Drug","score":0.7363120913505554},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5000803470611572},{"id":"https://openalex.org/keywords/non-negative-matrix-factorization","display_name":"Non-negative matrix factorization","score":0.4841080904006958},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.48253318667411804},{"id":"https://openalex.org/keywords/systems-biology","display_name":"Systems biology","score":0.4616028666496277},{"id":"https://openalex.org/keywords/matrix-decomposition","display_name":"Matrix decomposition","score":0.4311053454875946},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3069223165512085},{"id":"https://openalex.org/keywords/pharmacology","display_name":"Pharmacology","score":0.29636722803115845},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.11780276894569397}],"concepts":[{"id":"https://openalex.org/C2780035454","wikidata":"https://www.wikidata.org/wiki/Q8386","display_name":"Drug","level":2,"score":0.7363120913505554},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5000803470611572},{"id":"https://openalex.org/C152671427","wikidata":"https://www.wikidata.org/wiki/Q10843505","display_name":"Non-negative matrix factorization","level":4,"score":0.4841080904006958},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.48253318667411804},{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.4616028666496277},{"id":"https://openalex.org/C42355184","wikidata":"https://www.wikidata.org/wiki/Q1361088","display_name":"Matrix decomposition","level":3,"score":0.4311053454875946},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3069223165512085},{"id":"https://openalex.org/C98274493","wikidata":"https://www.wikidata.org/wiki/Q128406","display_name":"Pharmacology","level":1,"score":0.29636722803115845},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.11780276894569397},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C158693339","wikidata":"https://www.wikidata.org/wiki/Q190524","display_name":"Eigenvalues and eigenvectors","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004347","descriptor_name":"Drug Interactions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004347","descriptor_name":"Drug Interactions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004347","descriptor_name":"Drug Interactions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/s12918-018-0532-7","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12918-018-0532-7","pdf_url":"https://bmcsystbiol.biomedcentral.com/track/pdf/10.1186/s12918-018-0532-7","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Systems Biology","raw_type":"journal-article"},{"id":"pmid:29671393","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29671393","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":"BMC systems biology","raw_type":null},{"id":"pmh:oai:doaj.org/article:cd0b0402909b4c248b382c430e1b22e1","is_oa":true,"landing_page_url":"https://doaj.org/article/cd0b0402909b4c248b382c430e1b22e1","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Systems Biology, Vol 12, Iss S1, Pp 101-110 (2018)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:4848026","is_oa":true,"landing_page_url":"http://europepmc.org/pmc/articles/PMC5907306","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:5907306","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5907306","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Syst Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12918-018-0532-7","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12918-018-0532-7","pdf_url":"https://bmcsystbiol.biomedcentral.com/track/pdf/10.1186/s12918-018-0532-7","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Systems Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2376276132","display_name":null,"funder_award_id":"China","funder_id":"https://openalex.org/F4320335787","funder_display_name":"Fundamental Research Funds for the Central Universities"},{"id":"https://openalex.org/G3666977838","display_name":null,"funder_award_id":"3102017jghk02010","funder_id":"https://openalex.org/F4320335787","funder_display_name":"Fundamental Research Funds for the Central Universities"},{"id":"https://openalex.org/G4552188660","display_name":null,"funder_award_id":"2016ZC53028","funder_id":"https://openalex.org/F4320327472","funder_display_name":"Chinese Aeronautical Establishment"},{"id":"https://openalex.org/G8951484681","display_name":null,"funder_award_id":"Grant","funder_id":"https://openalex.org/F4320335787","funder_display_name":"Fundamental Research Funds for the Central Universities"}],"funders":[{"id":"https://openalex.org/F4320309475","display_name":"Northwestern University","ror":"https://ror.org/000e0be47"},{"id":"https://openalex.org/F4320321392","display_name":"Northwestern Polytechnical University","ror":"https://ror.org/01y0j0j86"},{"id":"https://openalex.org/F4320327472","display_name":"Chinese Aeronautical Establishment","ror":null},{"id":"https://openalex.org/F4320329330","display_name":"Aviation Science Fund","ror":null},{"id":"https://openalex.org/F4320335787","display_name":"Fundamental Research Funds for the Central Universities","ror":null}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2798133167.pdf","grobid_xml":"https://content.openalex.org/works/W2798133167.grobid-xml"},"referenced_works_count":36,"referenced_works":["https://openalex.org/W363319864","https://openalex.org/W1018047830","https://openalex.org/W1504886279","https://openalex.org/W1965798274","https://openalex.org/W1976251851","https://openalex.org/W1992475241","https://openalex.org/W1994734967","https://openalex.org/W2004281677","https://openalex.org/W2018518196","https://openalex.org/W2029592334","https://openalex.org/W2089335003","https://openalex.org/W2091439417","https://openalex.org/W2096705340","https://openalex.org/W2109991441","https://openalex.org/W2119002393","https://openalex.org/W2124479345","https://openalex.org/W2135037015","https://openalex.org/W2137775956","https://openalex.org/W2140095548","https://openalex.org/W2165863045","https://openalex.org/W2168103112","https://openalex.org/W2337697610","https://openalex.org/W2513494919","https://openalex.org/W2516562520","https://openalex.org/W2542130163","https://openalex.org/W2559588458","https://openalex.org/W2571868483","https://openalex.org/W2590314618","https://openalex.org/W2598232159","https://openalex.org/W2615259694","https://openalex.org/W2993862983","https://openalex.org/W3143596294","https://openalex.org/W4250755387","https://openalex.org/W4251898864","https://openalex.org/W4296300888","https://openalex.org/W6680012447"],"related_works":["https://openalex.org/W2127243424","https://openalex.org/W4390394189","https://openalex.org/W2037504162","https://openalex.org/W2539013788","https://openalex.org/W2792706544","https://openalex.org/W1568451138","https://openalex.org/W2156699640","https://openalex.org/W2045265907","https://openalex.org/W2972997031","https://openalex.org/W34555840"],"abstract_inverted_index":{"Our":[0],"approach":[1],"is":[2,108,116],"able":[3],"to":[4,60],"predict":[5],"not":[6,109],"only":[7],"conventional":[8],"binary":[9,28,74],"DDIs":[10,84,107],"but":[11],"also":[12],"comprehensive":[13,95,113],"DDIs.":[14],"More":[15],"importantly,":[16],"it":[17,87],"reveals":[18],"several":[19],"key":[20],"points":[21],"about":[22,80],"the":[23,42,54,73,94,99,112],"DDI":[24,75,96,114],"network:":[25],"(1)":[26],"both":[27,38],"and":[29,41,47,68,82,105],"signed":[30],"networks":[31],"show":[32,50],"fairly":[33],"clear":[34],"clusters,":[35],"in":[36,93],"which":[37],"drug":[39],"degree":[40,46,49,67],"difference":[43,64],"between":[44,65],"positive":[45,66],"negative":[48,69],"significant":[51],"distribution;":[52],"(2)":[53],"drugs":[55],"having":[56],"large":[57],"degrees":[58],"tend":[59],"have":[61],"a":[62,119],"larger":[63],"degree;":[70],"(3)":[71],"though":[72],"network":[76,115],"contains":[77],"no":[78],"information":[79],"enhancive":[81,104],"degressive":[83,106],"at":[85],"all,":[86],"implies":[88],"some":[89],"of":[90,101],"their":[91],"relationship":[92],"matrix;":[97],"(4)":[98],"occurrence":[100],"signs":[102],"indicating":[103],"random":[110],"because":[111],"equipped":[117],"with":[118],"structural":[120],"balance.":[121]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":21},{"year":2024,"cited_by_count":15},{"year":2023,"cited_by_count":18},{"year":2022,"cited_by_count":25},{"year":2021,"cited_by_count":10},{"year":2020,"cited_by_count":11},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":4}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
