{"id":"https://openalex.org/W2112122974","doi":"https://doi.org/10.1093/bioinformatics/btt240","title":"A context-sensitive framework for the analysis of human signalling pathways in molecular interaction networks","display_name":"A context-sensitive framework for the analysis of human signalling pathways in molecular interaction networks","publication_year":2013,"publication_date":"2013-06-19","ids":{"openalex":"https://openalex.org/W2112122974","doi":"https://doi.org/10.1093/bioinformatics/btt240","mag":"2112122974","pmid":"https://pubmed.ncbi.nlm.nih.gov/23812986"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btt240","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt240","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/29/13/i210/50702329/bioinformatics_29_13_i210.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","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/29/13/i210/50702329/bioinformatics_29_13_i210.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5068562490","display_name":"Alexander Lan","orcid":null},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Alexander Lan","raw_affiliation_strings":["Department of Computer Science, National Center for Biotechnology in the Negev, Ben-Gurion University of the Negev, Beer-Sheva 84105, Israel"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, National Center for Biotechnology in the Negev, Ben-Gurion University of the Negev, Beer-Sheva 84105, Israel","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5048383219","display_name":"Michal Ziv-Ukelson","orcid":null},"institutions":[{"id":"https://openalex.org/I124227911","display_name":"Ben-Gurion University of the Negev","ror":"https://ror.org/05tkyf982","country_code":"IL","type":"education","lineage":["https://openalex.org/I124227911"]}],"countries":["IL"],"is_corresponding":false,"raw_author_name":"Michal Ziv-Ukelson","raw_affiliation_strings":["Department of Computer Science,","1Department of Computer Science, 2Department of Clinical Biochemistry and Pharmacology and 3National Center for Biotechnology in the Negev, Ben-Gurion University of the Negev, Beer-Sheva 84105, Israel"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science,","institution_ids":[]},{"raw_affiliation_string":"1Department of Computer Science, 2Department of Clinical Biochemistry and Pharmacology and 3National Center for Biotechnology in the Negev, Ben-Gurion University of the Negev, Beer-Sheva 84105, Israel","institution_ids":["https://openalex.org/I124227911"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5059198564","display_name":"Esti Yeger\u2010Lotem","orcid":"https://orcid.org/0000-0002-8279-7898"},"institutions":[{"id":"https://openalex.org/I124227911","display_name":"Ben-Gurion University of the Negev","ror":"https://ror.org/05tkyf982","country_code":"IL","type":"education","lineage":["https://openalex.org/I124227911"]}],"countries":["IL"],"is_corresponding":false,"raw_author_name":"Esti Yeger-Lotem","raw_affiliation_strings":["Department of Clinical Biochemistry and Pharmacology and","National Center for Biotechnology in the Negev, Ben-Gurion University of the Negev, Beer-Sheva 84105, Israel","1Department of Computer Science, 2Department of Clinical Biochemistry and Pharmacology and 3National Center for Biotechnology in the Negev, Ben-Gurion University of the Negev, Beer-Sheva 84105, Israel"],"affiliations":[{"raw_affiliation_string":"Department of Clinical Biochemistry and Pharmacology and","institution_ids":[]},{"raw_affiliation_string":"National Center for Biotechnology in the Negev, Ben-Gurion University of the Negev, Beer-Sheva 84105, Israel","institution_ids":["https://openalex.org/I124227911"]},{"raw_affiliation_string":"1Department of Computer Science, 2Department of Clinical Biochemistry and Pharmacology and 3National Center for Biotechnology in the Negev, Ben-Gurion University of the Negev, Beer-Sheva 84105, Israel","institution_ids":["https://openalex.org/I124227911"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5068562490"],"corresponding_institution_ids":[],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.5989,"has_fulltext":true,"cited_by_count":9,"citation_normalized_percentile":{"value":0.69496646,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"29","issue":"13","first_page":"i210","last_page":"i216"},"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.9965999722480774,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9940999746322632,"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/context","display_name":"Context (archaeology)","score":0.7030619382858276},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5848644971847534},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5670288801193237},{"id":"https://openalex.org/keywords/signalling","display_name":"Signalling","score":0.5585492253303528},{"id":"https://openalex.org/keywords/signalling-pathways","display_name":"Signalling pathways","score":0.5384471416473389},{"id":"https://openalex.org/keywords/pathway-analysis","display_name":"Pathway analysis","score":0.47097113728523254},{"id":"https://openalex.org/keywords/signal-transduction","display_name":"Signal transduction","score":0.3597436249256134},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.28396889567375183},{"id":"https://openalex.org/keywords/cell-biology","display_name":"Cell biology","score":0.23655188083648682},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.14621683955192566},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.1454039216041565},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.10011738538742065}],"concepts":[{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.7030619382858276},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5848644971847534},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5670288801193237},{"id":"https://openalex.org/C39743133","wikidata":"https://www.wikidata.org/wiki/Q3262595","display_name":"Signalling","level":2,"score":0.5585492253303528},{"id":"https://openalex.org/C3018449070","wikidata":"https://www.wikidata.org/wiki/Q828130","display_name":"Signalling pathways","level":3,"score":0.5384471416473389},{"id":"https://openalex.org/C2779230013","wikidata":"https://www.wikidata.org/wiki/Q25303877","display_name":"Pathway analysis","level":4,"score":0.47097113728523254},{"id":"https://openalex.org/C62478195","wikidata":"https://www.wikidata.org/wiki/Q828130","display_name":"Signal transduction","level":2,"score":0.3597436249256134},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.28396889567375183},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.23655188083648682},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.14621683955192566},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.1454039216041565},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.10011738538742065},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","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":"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":"D008168","descriptor_name":"Lung","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008168","descriptor_name":"Lung","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008168","descriptor_name":"Lung","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008168","descriptor_name":"Lung","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D008168","descriptor_name":"Lung","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D008168","descriptor_name":"Lung","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009975","descriptor_name":"Orthomyxoviridae","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009975","descriptor_name":"Orthomyxoviridae","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009975","descriptor_name":"Orthomyxoviridae","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014764","descriptor_name":"Viral Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014764","descriptor_name":"Viral Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014764","descriptor_name":"Viral Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","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":true},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"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},{"descriptor_ui":"D063990","descriptor_name":"Gene Ontology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D063990","descriptor_name":"Gene Ontology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D063990","descriptor_name":"Gene Ontology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btt240","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt240","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/29/13/i210/50702329/bioinformatics_29_13_i210.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:23812986","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23812986","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:europepmc.org:2688179","is_oa":false,"landing_page_url":"http://europepmc.org/articles/PMC3694656","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:3694656","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3694656","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btt240","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt240","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/29/13/i210/50702329/bioinformatics_29_13_i210.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2493519717","display_name":"A Computational Systems Biology Approach to Reveal the Molecular Basis of Complex Diseases","funder_award_id":"256360","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"}],"funders":[{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320320950","display_name":"United States-Israel Binational Science Foundation","ror":"https://ror.org/00j8z2m73"},{"id":"https://openalex.org/F4320322252","display_name":"Israel Science Foundation","ror":"https://ror.org/04sazxf24"},{"id":"https://openalex.org/F4320338368","display_name":"FP7 People: Marie-Curie Actions","ror":"https://ror.org/00k4n6c32"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2112122974.pdf","grobid_xml":"https://content.openalex.org/works/W2112122974.grobid-xml"},"referenced_works_count":35,"referenced_works":["https://openalex.org/W1964541540","https://openalex.org/W1972129511","https://openalex.org/W2003652380","https://openalex.org/W2010134474","https://openalex.org/W2011353204","https://openalex.org/W2018570668","https://openalex.org/W2036568936","https://openalex.org/W2037442572","https://openalex.org/W2040575110","https://openalex.org/W2047031939","https://openalex.org/W2057545775","https://openalex.org/W2062533676","https://openalex.org/W2071609712","https://openalex.org/W2084168100","https://openalex.org/W2097520363","https://openalex.org/W2100025044","https://openalex.org/W2101674614","https://openalex.org/W2103017472","https://openalex.org/W2103165401","https://openalex.org/W2105325784","https://openalex.org/W2122345971","https://openalex.org/W2130687290","https://openalex.org/W2131532450","https://openalex.org/W2133074013","https://openalex.org/W2135030836","https://openalex.org/W2136303131","https://openalex.org/W2140502208","https://openalex.org/W2148866736","https://openalex.org/W2152124140","https://openalex.org/W2160103276","https://openalex.org/W2166606182","https://openalex.org/W2915108429","https://openalex.org/W2916767477","https://openalex.org/W2917375902","https://openalex.org/W4285719527"],"related_works":["https://openalex.org/W2092427118","https://openalex.org/W2058539798","https://openalex.org/W2947741874","https://openalex.org/W1492131881","https://openalex.org/W2114018997","https://openalex.org/W2087709298","https://openalex.org/W2165025106","https://openalex.org/W4386778658","https://openalex.org/W2969844295","https://openalex.org/W2987447052"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":2}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}