{"id":"https://openalex.org/W1871425200","doi":"https://doi.org/10.1186/s12859-015-0756-0","title":"Indexing a protein-protein interaction network expedites network alignment","display_name":"Indexing a protein-protein interaction network expedites network alignment","publication_year":2015,"publication_date":"2015-10-09","ids":{"openalex":"https://openalex.org/W1871425200","doi":"https://doi.org/10.1186/s12859-015-0756-0","mag":"1871425200","pmid":"https://pubmed.ncbi.nlm.nih.gov/26453444"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-015-0756-0","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-015-0756-0","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-015-0756-0","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","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 Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-015-0756-0","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100326701","display_name":"Md Mahmudul Hasan","orcid":"https://orcid.org/0000-0002-2061-6641"},"institutions":[{"id":"https://openalex.org/I33213144","display_name":"University of Florida","ror":"https://ror.org/02y3ad647","country_code":"US","type":"education","lineage":["https://openalex.org/I33213144"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Md Mahmudul Hasan","raw_affiliation_strings":["Department of Computer & Information Science and Engineering, University of Florida, Gainesville FL, 32611, USA. mmhasan@cise.ufl.edu","Department of Computer and Information Science and Engineering, University of Florida Gainesville FL USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer & Information Science and Engineering, University of Florida, Gainesville FL, 32611, USA. mmhasan@cise.ufl.edu","institution_ids":[]},{"raw_affiliation_string":"Department of Computer and Information Science and Engineering, University of Florida Gainesville FL USA","institution_ids":["https://openalex.org/I33213144"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5091769289","display_name":"Tamer Kahveci","orcid":"https://orcid.org/0000-0002-4403-8612"},"institutions":[{"id":"https://openalex.org/I33213144","display_name":"University of Florida","ror":"https://ror.org/02y3ad647","country_code":"US","type":"education","lineage":["https://openalex.org/I33213144"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Tamer Kahveci","raw_affiliation_strings":["Department of Computer & Information Science and Engineering, University of Florida, Gainesville FL, 32611, USA. tamer@cise.ufl.edu","Department of Computer and Information Science and Engineering, University of Florida Gainesville FL USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer & Information Science and Engineering, University of Florida, Gainesville FL, 32611, USA. tamer@cise.ufl.edu","institution_ids":[]},{"raw_affiliation_string":"Department of Computer and Information Science and Engineering, University of Florida Gainesville FL USA","institution_ids":["https://openalex.org/I33213144"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5100326701"],"corresponding_institution_ids":["https://openalex.org/I33213144"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.4527,"has_fulltext":true,"cited_by_count":9,"citation_normalized_percentile":{"value":0.65232582,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"16","issue":"1","first_page":"326","last_page":"326"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9997000098228455,"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":0.9997000098228455,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9800999760627747,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9799000024795532,"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/subnetwork","display_name":"Subnetwork","score":0.8512595891952515},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7698334455490112},{"id":"https://openalex.org/keywords/search-engine-indexing","display_name":"Search engine indexing","score":0.6767967939376831},{"id":"https://openalex.org/keywords/centrality","display_name":"Centrality","score":0.5507798790931702},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.5367255210876465},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4949762225151062},{"id":"https://openalex.org/keywords/index","display_name":"Index (typography)","score":0.44275039434432983},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.42999377846717834},{"id":"https://openalex.org/keywords/upper-and-lower-bounds","display_name":"Upper and lower bounds","score":0.4178248941898346},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.2023904025554657},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.17480459809303284},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.12045556306838989},{"id":"https://openalex.org/keywords/computer-network","display_name":"Computer network","score":0.11922353506088257},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.09331211447715759},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.0716695487499237}],"concepts":[{"id":"https://openalex.org/C2780186347","wikidata":"https://www.wikidata.org/wiki/Q11414","display_name":"Subnetwork","level":2,"score":0.8512595891952515},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7698334455490112},{"id":"https://openalex.org/C75165309","wikidata":"https://www.wikidata.org/wiki/Q2258979","display_name":"Search engine indexing","level":2,"score":0.6767967939376831},{"id":"https://openalex.org/C53811970","wikidata":"https://www.wikidata.org/wiki/Q5062194","display_name":"Centrality","level":2,"score":0.5507798790931702},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.5367255210876465},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4949762225151062},{"id":"https://openalex.org/C2777382242","wikidata":"https://www.wikidata.org/wiki/Q6017816","display_name":"Index (typography)","level":2,"score":0.44275039434432983},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.42999377846717834},{"id":"https://openalex.org/C77553402","wikidata":"https://www.wikidata.org/wiki/Q13222579","display_name":"Upper and lower bounds","level":2,"score":0.4178248941898346},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2023904025554657},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.17480459809303284},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.12045556306838989},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.11922353506088257},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.09331211447715759},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0716695487499237},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","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}],"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":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D054730","descriptor_name":"Protein Interaction Domains and Motifs","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D054730","descriptor_name":"Protein Interaction Domains and Motifs","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D054730","descriptor_name":"Protein Interaction Domains and Motifs","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D054730","descriptor_name":"Protein Interaction Domains and Motifs","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1186/s12859-015-0756-0","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-015-0756-0","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-015-0756-0","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","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 Bioinformatics","raw_type":"journal-article"},{"id":"pmid:26453444","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26453444","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 bioinformatics","raw_type":null},{"id":"pmh:oai:europepmc.org:3576566","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4600321","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"}],"best_oa_location":{"id":"doi:10.1186/s12859-015-0756-0","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-015-0756-0","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-015-0756-0","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","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 Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1583951694","display_name":"ABI Innovation: Querying Massive Dynamic Biological Network Databases","funder_award_id":"1262451","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1871425200.pdf","grobid_xml":"https://content.openalex.org/works/W1871425200.grobid-xml"},"referenced_works_count":55,"referenced_works":["https://openalex.org/W1490787220","https://openalex.org/W1788277699","https://openalex.org/W1966893452","https://openalex.org/W1976511318","https://openalex.org/W1979360205","https://openalex.org/W1984209790","https://openalex.org/W2018697964","https://openalex.org/W2028976391","https://openalex.org/W2035036132","https://openalex.org/W2036265926","https://openalex.org/W2056124433","https://openalex.org/W2078542889","https://openalex.org/W2092986233","https://openalex.org/W2095867585","https://openalex.org/W2100740967","https://openalex.org/W2101511590","https://openalex.org/W2102057828","https://openalex.org/W2104009289","https://openalex.org/W2104812688","https://openalex.org/W2106202847","https://openalex.org/W2110017370","https://openalex.org/W2112200469","https://openalex.org/W2118269922","https://openalex.org/W2130237248","https://openalex.org/W2133294187","https://openalex.org/W2133465414","https://openalex.org/W2142343225","https://openalex.org/W2142965177","https://openalex.org/W2145704518","https://openalex.org/W2147913014","https://openalex.org/W2153624566","https://openalex.org/W2153929049","https://openalex.org/W2154139219","https://openalex.org/W2155070669","https://openalex.org/W2155320925","https://openalex.org/W2158217645","https://openalex.org/W2159482845","https://openalex.org/W2159693571","https://openalex.org/W2160556205","https://openalex.org/W2163480486","https://openalex.org/W2164461702","https://openalex.org/W2166689108","https://openalex.org/W2167222948","https://openalex.org/W2222512263","https://openalex.org/W2266568276","https://openalex.org/W2296148711","https://openalex.org/W2506642202","https://openalex.org/W2545307730","https://openalex.org/W2611804663","https://openalex.org/W3194776842","https://openalex.org/W4242825868","https://openalex.org/W4246297465","https://openalex.org/W4294216483","https://openalex.org/W6680870402","https://openalex.org/W6682055942"],"related_works":["https://openalex.org/W2060724872","https://openalex.org/W15348386","https://openalex.org/W2478888221","https://openalex.org/W2322248538","https://openalex.org/W2095452756","https://openalex.org/W118100147","https://openalex.org/W2521885831","https://openalex.org/W2135602072","https://openalex.org/W1979360205","https://openalex.org/W2494457055"],"abstract_inverted_index":{"We":[0],"developed":[1],"a":[2],"reference":[3],"network":[4,10],"based":[5],"indexing":[6],"structure":[7],"that":[8],"accelerates":[9],"query":[11],"and":[12,15],"produces":[13],"functionally":[14],"statistically":[16],"significant":[17],"results.":[18]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":2},{"year":2016,"cited_by_count":1}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
