{"id":"https://openalex.org/W2558585189","doi":"https://doi.org/10.1093/nar/gkw1082","title":"pathDIP: an annotated resource for known and predicted human gene-pathway associations and pathway enrichment analysis","display_name":"pathDIP: an annotated resource for known and predicted human gene-pathway associations and pathway enrichment analysis","publication_year":2016,"publication_date":"2016-10-25","ids":{"openalex":"https://openalex.org/W2558585189","doi":"https://doi.org/10.1093/nar/gkw1082","mag":"2558585189","pmid":"https://pubmed.ncbi.nlm.nih.gov/27899558"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkw1082","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkw1082","pdf_url":"https://academic.oup.com/nar/article-pdf/45/D1/D419/8846794/gkw1082.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/nar/article-pdf/45/D1/D419/8846794/gkw1082.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5088667484","display_name":"Sara Rahmati","orcid":"https://orcid.org/0000-0002-2009-4660"},"institutions":[{"id":"https://openalex.org/I185261750","display_name":"University of Toronto","ror":"https://ror.org/03dbr7087","country_code":"CA","type":"education","lineage":["https://openalex.org/I185261750"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Sara Rahmati","raw_affiliation_strings":["Department of Medical Biophysics, University of Toronto, Toronto, ON M5G 1L7, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Medical Biophysics, University of Toronto, Toronto, ON M5G 1L7, Canada","institution_ids":["https://openalex.org/I185261750"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004328926","display_name":"Mark Abovsky","orcid":null},"institutions":[{"id":"https://openalex.org/I1325899441","display_name":"University Health Network","ror":"https://ror.org/042xt5161","country_code":"CA","type":"healthcare","lineage":["https://openalex.org/I1325899441"]},{"id":"https://openalex.org/I2802654988","display_name":"Princess Margaret Cancer Centre","ror":"https://ror.org/03zayce58","country_code":"CA","type":"healthcare","lineage":["https://openalex.org/I1325899441","https://openalex.org/I2802654988"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Mark Abovsky","raw_affiliation_strings":["Princess Margaret Cancer Centre, University Health Network, 101 College Street, TMDT, Room 11-314, Toronto, ON M5G 1L7, Canada","Princess Margaret Cancer Centre, University Health Network, 101 College Street, TMDT, Room 11\u2013314, Toronto, ON M5G 1L7, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Princess Margaret Cancer Centre, University Health Network, 101 College Street, TMDT, Room 11-314, Toronto, ON M5G 1L7, Canada","institution_ids":[]},{"raw_affiliation_string":"Princess Margaret Cancer Centre, University Health Network, 101 College Street, TMDT, Room 11\u2013314, Toronto, ON M5G 1L7, Canada","institution_ids":["https://openalex.org/I2802654988","https://openalex.org/I1325899441"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5085732287","display_name":"Chiara Pastrello","orcid":"https://orcid.org/0000-0002-1934-7472"},"institutions":[{"id":"https://openalex.org/I1325899441","display_name":"University Health Network","ror":"https://ror.org/042xt5161","country_code":"CA","type":"healthcare","lineage":["https://openalex.org/I1325899441"]},{"id":"https://openalex.org/I2802654988","display_name":"Princess Margaret Cancer Centre","ror":"https://ror.org/03zayce58","country_code":"CA","type":"healthcare","lineage":["https://openalex.org/I1325899441","https://openalex.org/I2802654988"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Chiara Pastrello","raw_affiliation_strings":["Princess Margaret Cancer Centre, University Health Network, 101 College Street, TMDT, Room 11-314, Toronto, ON M5G 1L7, Canada","Princess Margaret Cancer Centre, University Health Network, 101 College Street, TMDT, Room 11\u2013314, Toronto, ON M5G 1L7, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Princess Margaret Cancer Centre, University Health Network, 101 College Street, TMDT, Room 11-314, Toronto, ON M5G 1L7, Canada","institution_ids":[]},{"raw_affiliation_string":"Princess Margaret Cancer Centre, University Health Network, 101 College Street, TMDT, Room 11\u2013314, Toronto, ON M5G 1L7, Canada","institution_ids":["https://openalex.org/I2802654988","https://openalex.org/I1325899441"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5055656807","display_name":"Igor Juri\u0161ica","orcid":"https://orcid.org/0000-0002-2507-946X"},"institutions":[{"id":"https://openalex.org/I1325899441","display_name":"University Health Network","ror":"https://ror.org/042xt5161","country_code":"CA","type":"healthcare","lineage":["https://openalex.org/I1325899441"]},{"id":"https://openalex.org/I4210145572","display_name":"Institute of Neuroimmunology of the Slovak Academy of Sciences","ror":"https://ror.org/05c516317","country_code":"SK","type":"facility","lineage":["https://openalex.org/I207624831","https://openalex.org/I4210145572"]},{"id":"https://openalex.org/I2802654988","display_name":"Princess Margaret Cancer Centre","ror":"https://ror.org/03zayce58","country_code":"CA","type":"healthcare","lineage":["https://openalex.org/I1325899441","https://openalex.org/I2802654988"]},{"id":"https://openalex.org/I185261750","display_name":"University of Toronto","ror":"https://ror.org/03dbr7087","country_code":"CA","type":"education","lineage":["https://openalex.org/I185261750"]},{"id":"https://openalex.org/I207624831","display_name":"Slovak Academy of Sciences","ror":"https://ror.org/03h7qq074","country_code":"SK","type":"funder","lineage":["https://openalex.org/I207624831"]}],"countries":["CA","SK"],"is_corresponding":true,"raw_author_name":"Igor Jurisica","raw_affiliation_strings":["Department of Computer Science, University of Toronto, Toronto, ON, Canada","Department of Medical Biophysics, University of Toronto, Toronto, ON M5G 1L7, Canada juris@ai.utoronto.ca","Institute of Neuroimmunology, Slovak Academy of Sciences, Bratislava, Slovakia","Princess Margaret Cancer Centre, University Health Network, 101 College Street, TMDT, Room 11-314, Toronto, ON M5G 1L7, Canada","Department of Medical Biophysics, University of Toronto, Toronto, ON M5G 1L7, Canada","Princess Margaret Cancer Centre, University Health Network, 101 College Street, TMDT, Room 11\u2013314, Toronto, ON M5G 1L7, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Toronto, Toronto, ON, Canada","institution_ids":["https://openalex.org/I185261750"]},{"raw_affiliation_string":"Department of Medical Biophysics, University of Toronto, Toronto, ON M5G 1L7, Canada juris@ai.utoronto.ca","institution_ids":[]},{"raw_affiliation_string":"Institute of Neuroimmunology, Slovak Academy of Sciences, Bratislava, Slovakia","institution_ids":["https://openalex.org/I4210145572","https://openalex.org/I207624831"]},{"raw_affiliation_string":"Princess Margaret Cancer Centre, University Health Network, 101 College Street, TMDT, Room 11-314, Toronto, ON M5G 1L7, Canada","institution_ids":[]},{"raw_affiliation_string":"Department of Medical Biophysics, University of Toronto, Toronto, ON M5G 1L7, Canada","institution_ids":["https://openalex.org/I185261750"]},{"raw_affiliation_string":"Princess Margaret Cancer Centre, University Health Network, 101 College Street, TMDT, Room 11\u2013314, Toronto, ON M5G 1L7, Canada","institution_ids":["https://openalex.org/I2802654988","https://openalex.org/I1325899441"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5055656807"],"corresponding_institution_ids":["https://openalex.org/I1325899441","https://openalex.org/I185261750","https://openalex.org/I207624831","https://openalex.org/I2802654988","https://openalex.org/I4210145572"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":7.8596,"has_fulltext":true,"cited_by_count":119,"citation_normalized_percentile":{"value":0.97902999,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":97,"max":100},"biblio":{"volume":"45","issue":"D1","first_page":"D419","last_page":"D426"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9998999834060669,"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":0.9998999834060669,"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":0.9839000105857849,"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":0.9764999747276306,"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/biology","display_name":"Biology","score":0.8240988254547119},{"id":"https://openalex.org/keywords/unavailability","display_name":"Unavailability","score":0.6955915689468384},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6544926166534424},{"id":"https://openalex.org/keywords/proteome","display_name":"Proteome","score":0.6285164952278137},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.6263964772224426},{"id":"https://openalex.org/keywords/biological-pathway","display_name":"Biological pathway","score":0.5657626986503601},{"id":"https://openalex.org/keywords/pathway-analysis","display_name":"Pathway analysis","score":0.5406415462493896},{"id":"https://openalex.org/keywords/human-proteome-project","display_name":"Human proteome project","score":0.444867879152298},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4032191336154938},{"id":"https://openalex.org/keywords/proteomics","display_name":"Proteomics","score":0.33620908856391907},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.329948753118515},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.10254156589508057}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.8240988254547119},{"id":"https://openalex.org/C2780505938","wikidata":"https://www.wikidata.org/wiki/Q17093282","display_name":"Unavailability","level":2,"score":0.6955915689468384},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6544926166534424},{"id":"https://openalex.org/C104397665","wikidata":"https://www.wikidata.org/wiki/Q860947","display_name":"Proteome","level":2,"score":0.6285164952278137},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.6263964772224426},{"id":"https://openalex.org/C9927688","wikidata":"https://www.wikidata.org/wiki/Q4915012","display_name":"Biological pathway","level":4,"score":0.5657626986503601},{"id":"https://openalex.org/C2779230013","wikidata":"https://www.wikidata.org/wiki/Q25303877","display_name":"Pathway analysis","level":4,"score":0.5406415462493896},{"id":"https://openalex.org/C94795543","wikidata":"https://www.wikidata.org/wiki/Q3813754","display_name":"Human proteome project","level":4,"score":0.444867879152298},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4032191336154938},{"id":"https://openalex.org/C46111723","wikidata":"https://www.wikidata.org/wiki/Q471857","display_name":"Proteomics","level":3,"score":0.33620908856391907},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.329948753118515},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.10254156589508057},{"id":"https://openalex.org/C200601418","wikidata":"https://www.wikidata.org/wiki/Q2193887","display_name":"Reliability engineering","level":1,"score":0.0},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"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":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"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},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","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":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/nar/gkw1082","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkw1082","pdf_url":"https://academic.oup.com/nar/article-pdf/45/D1/D419/8846794/gkw1082.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:27899558","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27899558","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:open-archive.highwire.org:nar:45/D1/D419","is_oa":false,"landing_page_url":"http://nar.oxfordjournals.org/cgi/content/short/45/D1/D419","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"TEXT"},{"id":"pmh:oai:pubmedcentral.nih.gov:5210562","is_oa":true,"landing_page_url":"http://doi.org/10.1093/nar/gkw1082","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gkw1082","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkw1082","pdf_url":"https://academic.oup.com/nar/article-pdf/45/D1/D419/8846794/gkw1082.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G4119534169","display_name":null,"funder_award_id":"W81XWH","funder_id":"https://openalex.org/F4320306078","funder_display_name":"U.S. Department of Defense"},{"id":"https://openalex.org/G5639122495","display_name":null,"funder_award_id":"203475","funder_id":"https://openalex.org/F4320334593","funder_display_name":"Natural Sciences and Engineering Research Council of Canada"}],"funders":[{"id":"https://openalex.org/F4320306078","display_name":"U.S. Department of Defense","ror":"https://ror.org/0447fe631"},{"id":"https://openalex.org/F4320334593","display_name":"Natural Sciences and Engineering Research Council of Canada","ror":"https://ror.org/01h531d29"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2558585189.pdf","grobid_xml":"https://content.openalex.org/works/W2558585189.grobid-xml"},"referenced_works_count":33,"referenced_works":["https://openalex.org/W1982390234","https://openalex.org/W1989277387","https://openalex.org/W1999586982","https://openalex.org/W2027847170","https://openalex.org/W2031717508","https://openalex.org/W2048296798","https://openalex.org/W2058451329","https://openalex.org/W2070923004","https://openalex.org/W2088891952","https://openalex.org/W2100980426","https://openalex.org/W2109607974","https://openalex.org/W2110256992","https://openalex.org/W2117692326","https://openalex.org/W2118151336","https://openalex.org/W2118446779","https://openalex.org/W2126997165","https://openalex.org/W2139550340","https://openalex.org/W2147241078","https://openalex.org/W2154947819","https://openalex.org/W2155330008","https://openalex.org/W2158217645","https://openalex.org/W2164298117","https://openalex.org/W2169622100","https://openalex.org/W2170637386","https://openalex.org/W2171599819","https://openalex.org/W2202954603","https://openalex.org/W2211041313","https://openalex.org/W2223119478","https://openalex.org/W2223549218","https://openalex.org/W2258573009","https://openalex.org/W2324571171","https://openalex.org/W2483768232","https://openalex.org/W2509717357"],"related_works":["https://openalex.org/W3092794487","https://openalex.org/W2094752534","https://openalex.org/W2885268310","https://openalex.org/W2025055488","https://openalex.org/W2575115220","https://openalex.org/W2580329791","https://openalex.org/W2909412621","https://openalex.org/W3032536091","https://openalex.org/W2145037531","https://openalex.org/W1975345997"],"abstract_inverted_index":{"Molecular":[0],"pathway":[1,19,43,53,74,108,121],"data":[2,70],"are":[3,14],"essential":[4],"in":[5],"current":[6],"computational":[7],"and":[8,17,45,103,115,133,138],"systems":[9],"biology":[10],"research.":[11],"While":[12],"there":[13],"many":[15],"primary":[16],"integrated":[18],"databases,":[20,33,75],"several":[21],"challenges":[22],"remain,":[23],"including":[24],"low":[25,29],"proteome":[26],"coverage":[27,106],"(57%),":[28],"overlap":[30],"across":[31],"different":[32],"unavailability":[34],"of":[35,42,48,98,107],"direct":[36],"information":[37],"about":[38],"underlying":[39],"physical":[40,79],"connectivity":[41],"members,":[44],"high":[46],"fraction":[47],"protein-coding":[49,111,128],"genes":[50,112,129],"without":[51],"any":[52],"annotations,":[54],"i.e.":[55],"'pathway":[56],"orphans'.":[57],"In":[58],"order":[59],"to":[60,82,89,113],"address":[61],"all":[62],"these":[63],"challenges,":[64],"we":[65],"developed":[66],"pathDIP,":[67],"which":[68],"integrates":[69],"from":[71],"20":[72],"source":[73],"'core":[76],"pathways',":[77],"with":[78,130],"protein-protein":[80],"interactions":[81],"predict":[83],"biologically":[84],"relevant":[85],"protein-pathway":[86],"associations,":[87],"referred":[88],"as":[90],"'extended":[91],"pathways'.":[92],"Cross-validation":[93],"determined":[94],"71%":[95],"recovery":[96],"rate":[97],"our":[99],"predictions.":[100],"Data":[101],"integration":[102],"predictions":[104],"increase":[105],"annotations":[109,118],"for":[110,119],"86%,":[114],"provide":[116],"novel":[117],"5732":[120],"orphans.":[122],"PathDIP":[123],"(http://ophid.utoronto.ca/pathdip)":[124],"annotates":[125],"17":[126],"070":[127],"4678":[131],"pathways,":[132],"provides":[134],"multiple":[135],"query,":[136],"analysis":[137],"output":[139],"options.":[140]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":8},{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":11},{"year":2022,"cited_by_count":14},{"year":2021,"cited_by_count":16},{"year":2020,"cited_by_count":17},{"year":2019,"cited_by_count":12},{"year":2018,"cited_by_count":13},{"year":2017,"cited_by_count":21}],"updated_date":"2026-01-13T01:12:25.745995","created_date":"2025-10-10T00:00:00"}
