{"id":"https://openalex.org/W3013126653","doi":"https://doi.org/10.1093/bioinformatics/btaa639","title":"PAFway: pairwise associations between functional annotations in biological networks and pathways","display_name":"PAFway: pairwise associations between functional annotations in biological networks and pathways","publication_year":2020,"publication_date":"2020-07-10","ids":{"openalex":"https://openalex.org/W3013126653","doi":"https://doi.org/10.1093/bioinformatics/btaa639","mag":"3013126653","pmid":"https://pubmed.ncbi.nlm.nih.gov/32678900"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btaa639","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa639","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/19/4963/34806314/btaa639.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/36/19/4963/34806314/btaa639.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5075085227","display_name":"Mahiar Mahjoub","orcid":"https://orcid.org/0000-0003-0951-9629"},"institutions":[{"id":"https://openalex.org/I125680101","display_name":"Turing Institute","ror":"https://ror.org/02x2mw849","country_code":"GB","type":"facility","lineage":["https://openalex.org/I125680101"]},{"id":"https://openalex.org/I129604602","display_name":"The University of Sydney","ror":"https://ror.org/0384j8v12","country_code":"AU","type":"education","lineage":["https://openalex.org/I129604602"]},{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]},{"id":"https://openalex.org/I2799732068","display_name":"Royal Prince Alfred Hospital","ror":"https://ror.org/05gpvde20","country_code":"AU","type":"healthcare","lineage":["https://openalex.org/I2799732068"]},{"id":"https://openalex.org/I4210128584","display_name":"The Alan Turing Institute","ror":"https://ror.org/035dkdb55","country_code":"GB","type":"facility","lineage":["https://openalex.org/I4210128584"]}],"countries":["AU","GB"],"is_corresponding":false,"raw_author_name":"Mahiar Mahjoub","raw_affiliation_strings":["Department of Mathematics, University of Cambridge , Cambridge CB3 0WA, UK","Royal Prince Alfred Hospital, Central Clinical School, University of Sydney , Sydney, NSW 2050, Australia","The Alan Turing Institute , London NW1 2DB, UK","Department of Mathematics, University of Cambridge, Cambridge CB3 0WA, UK,","Royal Prince Alfred Hospital, Central Clinical School, University of Sydney, Sydney, NSW 2050, Australia,","The Alan Turing Institute, London NW1 2DB, UK,"],"affiliations":[{"raw_affiliation_string":"Department of Mathematics, University of Cambridge , Cambridge CB3 0WA, UK","institution_ids":["https://openalex.org/I241749"]},{"raw_affiliation_string":"Royal Prince Alfred Hospital, Central Clinical School, University of Sydney , Sydney, NSW 2050, Australia","institution_ids":["https://openalex.org/I2799732068"]},{"raw_affiliation_string":"The Alan Turing Institute , London NW1 2DB, UK","institution_ids":["https://openalex.org/I125680101","https://openalex.org/I4210128584"]},{"raw_affiliation_string":"Department of Mathematics, University of Cambridge, Cambridge CB3 0WA, UK,","institution_ids":["https://openalex.org/I241749"]},{"raw_affiliation_string":"Royal Prince Alfred Hospital, Central Clinical School, University of Sydney, Sydney, NSW 2050, Australia,","institution_ids":["https://openalex.org/I2799732068","https://openalex.org/I129604602"]},{"raw_affiliation_string":"The Alan Turing Institute, London NW1 2DB, UK,","institution_ids":["https://openalex.org/I125680101","https://openalex.org/I4210128584"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5008944055","display_name":"Daphne Ezer","orcid":"https://orcid.org/0000-0002-1685-6909"},"institutions":[{"id":"https://openalex.org/I125680101","display_name":"Turing Institute","ror":"https://ror.org/02x2mw849","country_code":"GB","type":"facility","lineage":["https://openalex.org/I125680101"]},{"id":"https://openalex.org/I39555362","display_name":"University of Warwick","ror":"https://ror.org/01a77tt86","country_code":"GB","type":"education","lineage":["https://openalex.org/I39555362"]},{"id":"https://openalex.org/I4210128584","display_name":"The Alan Turing Institute","ror":"https://ror.org/035dkdb55","country_code":"GB","type":"facility","lineage":["https://openalex.org/I4210128584"]},{"id":"https://openalex.org/I52099693","display_name":"University of York","ror":"https://ror.org/04m01e293","country_code":"GB","type":"education","lineage":["https://openalex.org/I52099693"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Daphne Ezer","raw_affiliation_strings":["Department of Biology, University of York , York, YO10 5NG, UK","Department of Statistics, University of Warwick , Coventry CV4 7AL, UK","The Alan Turing Institute , London NW1 2DB, UK","The Alan Turing Institute, London NW1 2DB, UK,","Department of Statistics, University of Warwick, Coventry CV4 7AL, UK and"],"affiliations":[{"raw_affiliation_string":"Department of Biology, University of York , York, YO10 5NG, UK","institution_ids":["https://openalex.org/I52099693"]},{"raw_affiliation_string":"Department of Statistics, University of Warwick , Coventry CV4 7AL, UK","institution_ids":["https://openalex.org/I39555362"]},{"raw_affiliation_string":"The Alan Turing Institute , London NW1 2DB, UK","institution_ids":["https://openalex.org/I125680101","https://openalex.org/I4210128584"]},{"raw_affiliation_string":"The Alan Turing Institute, London NW1 2DB, UK,","institution_ids":["https://openalex.org/I125680101","https://openalex.org/I4210128584"]},{"raw_affiliation_string":"Department of Statistics, University of Warwick, Coventry CV4 7AL, UK and","institution_ids":["https://openalex.org/I39555362"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5008944055"],"corresponding_institution_ids":["https://openalex.org/I125680101","https://openalex.org/I39555362","https://openalex.org/I4210128584","https://openalex.org/I52099693"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.0836,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.43194968,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":"36","issue":"19","first_page":"4963","last_page":"4964"},"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":0.991599977016449,"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/T11882","display_name":"Plant biochemistry and biosynthesis","score":0.98580002784729,"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/pairwise-comparison","display_name":"Pairwise comparison","score":0.8877737522125244},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.7782522439956665},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.6287850141525269},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.583898663520813},{"id":"https://openalex.org/keywords/r-package","display_name":"R package","score":0.5481899976730347},{"id":"https://openalex.org/keywords/biological-data","display_name":"Biological data","score":0.5053291916847229},{"id":"https://openalex.org/keywords/biological-database","display_name":"Biological database","score":0.4534603953361511},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.4350467324256897},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4326796531677246},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.35353347659111023},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.33275705575942993},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.29845285415649414},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.24479663372039795},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.2141115367412567},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.11451485753059387}],"concepts":[{"id":"https://openalex.org/C184898388","wikidata":"https://www.wikidata.org/wiki/Q1435712","display_name":"Pairwise comparison","level":2,"score":0.8877737522125244},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.7782522439956665},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.6287850141525269},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.583898663520813},{"id":"https://openalex.org/C2984074130","wikidata":"https://www.wikidata.org/wiki/Q73539779","display_name":"R package","level":2,"score":0.5481899976730347},{"id":"https://openalex.org/C201797286","wikidata":"https://www.wikidata.org/wiki/Q4914986","display_name":"Biological data","level":2,"score":0.5053291916847229},{"id":"https://openalex.org/C20901353","wikidata":"https://www.wikidata.org/wiki/Q4117139","display_name":"Biological database","level":2,"score":0.4534603953361511},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.4350467324256897},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4326796531677246},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.35353347659111023},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.33275705575942993},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.29845285415649414},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.24479663372039795},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.2141115367412567},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.11451485753059387},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.0},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0}],"mesh":[{"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":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btaa639","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa639","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/19/4963/34806314/btaa639.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:32678900","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/32678900","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:eprints.whiterose.ac.uk:154294","is_oa":true,"landing_page_url":null,"pdf_url":"https://eprints.whiterose.ac.uk/154294/2/Template_for_Oxford_Bioinformatics_Journal_new_version_1_.pdf","source":{"id":"https://openalex.org/S4306400854","display_name":"White Rose Research Online (University of Leeds, The University of Sheffield, University of York)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2800616092","host_organization_name":"White Rose University Consortium","host_organization_lineage":["https://openalex.org/I2800616092"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"NonPeerReviewed"},{"id":"pmh:oai:pubmedcentral.nih.gov:7750965","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7750965","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":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btaa639","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa639","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/19/4963/34806314/btaa639.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/G1361938442","display_name":null,"funder_award_id":"Fellowship","funder_id":"https://openalex.org/F4320334627","funder_display_name":"Engineering and Physical Sciences Research Council"},{"id":"https://openalex.org/G1934935867","display_name":null,"funder_award_id":"Engineering and Physical Sciences R","funder_id":"https://openalex.org/F4320334627","funder_display_name":"Engineering and Physical Sciences Research Council"},{"id":"https://openalex.org/G2741879548","display_name":null,"funder_award_id":"EPSRC/","funder_id":"https://openalex.org/F4320334627","funder_display_name":"Engineering and Physical Sciences Research Council"},{"id":"https://openalex.org/G5550538522","display_name":null,"funder_award_id":"TU/A/000017","funder_id":"https://openalex.org/F4320334627","funder_display_name":"Engineering and Physical Sciences Research Council"}],"funders":[{"id":"https://openalex.org/F4320314731","display_name":"UK Research and Innovation","ror":"https://ror.org/001aqnf71"},{"id":"https://openalex.org/F4320332167","display_name":"Directorate for Biological Sciences","ror":"https://ror.org/001xhss06"},{"id":"https://openalex.org/F4320334627","display_name":"Engineering and Physical Sciences Research Council","ror":"https://ror.org/0439y7842"},{"id":"https://openalex.org/F4320334629","display_name":"Biotechnology and Biological Sciences Research Council","ror":"https://ror.org/00cwqg982"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3013126653.pdf","grobid_xml":"https://content.openalex.org/works/W3013126653.grobid-xml"},"referenced_works_count":11,"referenced_works":["https://openalex.org/W1647729745","https://openalex.org/W1659833910","https://openalex.org/W2109912704","https://openalex.org/W2117527407","https://openalex.org/W2121343862","https://openalex.org/W2163726287","https://openalex.org/W2171030481","https://openalex.org/W2411047100","https://openalex.org/W2598585991","https://openalex.org/W6678245021","https://openalex.org/W6735034737"],"related_works":["https://openalex.org/W2155492529","https://openalex.org/W4252504573","https://openalex.org/W2587303152","https://openalex.org/W2120890012","https://openalex.org/W2131550814","https://openalex.org/W4283723149","https://openalex.org/W15348386","https://openalex.org/W2286239702","https://openalex.org/W782572168","https://openalex.org/W1982109448"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
