{"id":"https://openalex.org/W2223415318","doi":"https://doi.org/10.1186/s12859-015-0864-x","title":"ChainRank, a chain prioritisation method for contextualisation of biological networks","display_name":"ChainRank, a chain prioritisation method for contextualisation of biological networks","publication_year":2016,"publication_date":"2016-01-04","ids":{"openalex":"https://openalex.org/W2223415318","doi":"https://doi.org/10.1186/s12859-015-0864-x","mag":"2223415318","pmid":"https://pubmed.ncbi.nlm.nih.gov/26729273"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-015-0864-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-015-0864-x","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-015-0864-x","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/s12859-015-0864-x","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5091191997","display_name":"\u00c1kos T\u00e9nyi","orcid":"https://orcid.org/0000-0002-4880-6594"},"institutions":[{"id":"https://openalex.org/I4210099160","display_name":"Centro de Investigaci\u00f3n Biom\u00e9dica en Red de Enfermedades Respiratorias","ror":"https://ror.org/0119pby33","country_code":"ES","type":"facility","lineage":["https://openalex.org/I2801357902","https://openalex.org/I4210099160","https://openalex.org/I4210115082","https://openalex.org/I4387152914"]},{"id":"https://openalex.org/I4210160192","display_name":"Consorci Institut D'Investigacions Biomediques August Pi I Sunyer","ror":"https://ror.org/054vayn55","country_code":"ES","type":"facility","lineage":["https://openalex.org/I4210160192","https://openalex.org/I4387153040"]},{"id":"https://openalex.org/I71999127","display_name":"Universitat de Barcelona","ror":"https://ror.org/021018s57","country_code":"ES","type":"education","lineage":["https://openalex.org/I71999127"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"\u00c1kos T\u00e9nyi","raw_affiliation_strings":["Centro de Investigaci\u00f3n en Red de Enfermedades Respiratorias (CibeRes), 07110, Palma de Mallorca, Spain. tenyi.akos@ub.edu","Hospital Cl\u00ednic-Institut d'Investigacions Biomediques August Pi i Sunyer (IDIBAPS), Research Institute, Universitat de Barcelona, C/Villarroel 170, 08036, Barcelona, Spain. tenyi.akos@ub.edu","Hospital Cl\u00ednic-Institut d'Investigacions Biomediques August Pi i Sunyer (IDIBAPS), Research Institute, Universitat de Barcelona, C/Villarroel 170, 08036, Barcelona, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centro de Investigaci\u00f3n en Red de Enfermedades Respiratorias (CibeRes), 07110, Palma de Mallorca, Spain. tenyi.akos@ub.edu","institution_ids":["https://openalex.org/I4210099160"]},{"raw_affiliation_string":"Hospital Cl\u00ednic-Institut d'Investigacions Biomediques August Pi i Sunyer (IDIBAPS), Research Institute, Universitat de Barcelona, C/Villarroel 170, 08036, Barcelona, Spain. tenyi.akos@ub.edu","institution_ids":["https://openalex.org/I4210160192","https://openalex.org/I71999127"]},{"raw_affiliation_string":"Hospital Cl\u00ednic-Institut d'Investigacions Biomediques August Pi i Sunyer (IDIBAPS), Research Institute, Universitat de Barcelona, C/Villarroel 170, 08036, Barcelona, Spain","institution_ids":["https://openalex.org/I4210160192","https://openalex.org/I71999127"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054288744","display_name":"Pedro de Atauri","orcid":"https://orcid.org/0000-0002-7754-7851"},"institutions":[{"id":"https://openalex.org/I4210160192","display_name":"Consorci Institut D'Investigacions Biomediques August Pi I Sunyer","ror":"https://ror.org/054vayn55","country_code":"ES","type":"facility","lineage":["https://openalex.org/I4210160192","https://openalex.org/I4387153040"]},{"id":"https://openalex.org/I4210166526","display_name":"Institut de Biologia Molecular de Barcelona","ror":"https://ror.org/05t8khn72","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210166526"]},{"id":"https://openalex.org/I71999127","display_name":"Universitat de Barcelona","ror":"https://ror.org/021018s57","country_code":"ES","type":"education","lineage":["https://openalex.org/I71999127"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Pedro de Atauri","raw_affiliation_strings":["Departament de Bioquimica i Biologia Molecular, Facultat de Biologia-IBUB, Universitat de Barcelona, 08028, Barcelona, Spain. pde_atauri@ub.edu","Hospital Cl\u00ednic-Institut d'Investigacions Biomediques August Pi i Sunyer (IDIBAPS), Research Institute, Universitat de Barcelona, C/Villarroel 170, 08036, Barcelona, Spain. pde_atauri@ub.edu","Hospital Cl\u00ednic-Institut d'Investigacions Biomediques August Pi i Sunyer (IDIBAPS), Research Institute, Universitat de Barcelona, C/Villarroel 170, 08036, Barcelona, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Departament de Bioquimica i Biologia Molecular, Facultat de Biologia-IBUB, Universitat de Barcelona, 08028, Barcelona, Spain. pde_atauri@ub.edu","institution_ids":["https://openalex.org/I71999127","https://openalex.org/I4210166526"]},{"raw_affiliation_string":"Hospital Cl\u00ednic-Institut d'Investigacions Biomediques August Pi i Sunyer (IDIBAPS), Research Institute, Universitat de Barcelona, C/Villarroel 170, 08036, Barcelona, Spain. pde_atauri@ub.edu","institution_ids":["https://openalex.org/I4210160192"]},{"raw_affiliation_string":"Hospital Cl\u00ednic-Institut d'Investigacions Biomediques August Pi i Sunyer (IDIBAPS), Research Institute, Universitat de Barcelona, C/Villarroel 170, 08036, Barcelona, Spain","institution_ids":["https://openalex.org/I4210160192","https://openalex.org/I71999127"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078466508","display_name":"David G\u00f3mez-Cabrero","orcid":"https://orcid.org/0000-0003-4186-3788"},"institutions":[{"id":"https://openalex.org/I1335113835","display_name":"Karolinska University Hospital","ror":"https://ror.org/00m8d6786","country_code":"SE","type":"healthcare","lineage":["https://openalex.org/I1335113835"]},{"id":"https://openalex.org/I28166907","display_name":"Karolinska Institutet","ror":"https://ror.org/056d84691","country_code":"SE","type":"education","lineage":["https://openalex.org/I28166907"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"David Gomez-Cabrero","raw_affiliation_strings":["Unit of computational Medicine, Center for Molecular Medicine, Department of Medicine, Karolinska Institute and Karolinska University Hospital, SE-171 76, Stockholm, Sweden. david.gomezcabrero@ki.se","Unit of computational Medicine, Center for Molecular Medicine, Department of Medicine, Karolinska Institute and Karolinska University Hospital, SE-171 76, Stockholm, Sweden"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Unit of computational Medicine, Center for Molecular Medicine, Department of Medicine, Karolinska Institute and Karolinska University Hospital, SE-171 76, Stockholm, Sweden. david.gomezcabrero@ki.se","institution_ids":["https://openalex.org/I1335113835"]},{"raw_affiliation_string":"Unit of computational Medicine, Center for Molecular Medicine, Department of Medicine, Karolinska Institute and Karolinska University Hospital, SE-171 76, Stockholm, Sweden","institution_ids":["https://openalex.org/I1335113835","https://openalex.org/I28166907"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051157475","display_name":"Isaac Cano","orcid":"https://orcid.org/0000-0003-2938-7459"},"institutions":[{"id":"https://openalex.org/I4210099160","display_name":"Centro de Investigaci\u00f3n Biom\u00e9dica en Red de Enfermedades Respiratorias","ror":"https://ror.org/0119pby33","country_code":"ES","type":"facility","lineage":["https://openalex.org/I2801357902","https://openalex.org/I4210099160","https://openalex.org/I4210115082","https://openalex.org/I4387152914"]},{"id":"https://openalex.org/I4210160192","display_name":"Consorci Institut D'Investigacions Biomediques August Pi I Sunyer","ror":"https://ror.org/054vayn55","country_code":"ES","type":"facility","lineage":["https://openalex.org/I4210160192","https://openalex.org/I4387153040"]},{"id":"https://openalex.org/I71999127","display_name":"Universitat de Barcelona","ror":"https://ror.org/021018s57","country_code":"ES","type":"education","lineage":["https://openalex.org/I71999127"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Isaac Cano","raw_affiliation_strings":["Centro de Investigaci\u00f3n en Red de Enfermedades Respiratorias (CibeRes), 07110, Palma de Mallorca, Spain. iscano@clinic.ub.es","Hospital Cl\u00ednic-Institut d'Investigacions Biomediques August Pi i Sunyer (IDIBAPS), Research Institute, Universitat de Barcelona, C/Villarroel 170, 08036, Barcelona, Spain. iscano@clinic.ub.es","Hospital Cl\u00ednic-Institut d'Investigacions Biomediques August Pi i Sunyer (IDIBAPS), Research Institute, Universitat de Barcelona, C/Villarroel 170, 08036, Barcelona, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centro de Investigaci\u00f3n en Red de Enfermedades Respiratorias (CibeRes), 07110, Palma de Mallorca, Spain. iscano@clinic.ub.es","institution_ids":["https://openalex.org/I4210099160"]},{"raw_affiliation_string":"Hospital Cl\u00ednic-Institut d'Investigacions Biomediques August Pi i Sunyer (IDIBAPS), Research Institute, Universitat de Barcelona, C/Villarroel 170, 08036, Barcelona, Spain. iscano@clinic.ub.es","institution_ids":["https://openalex.org/I4210160192","https://openalex.org/I71999127"]},{"raw_affiliation_string":"Hospital Cl\u00ednic-Institut d'Investigacions Biomediques August Pi i Sunyer (IDIBAPS), Research Institute, Universitat de Barcelona, C/Villarroel 170, 08036, Barcelona, Spain","institution_ids":["https://openalex.org/I4210160192","https://openalex.org/I71999127"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5067892307","display_name":"Kim Clarke","orcid":"https://orcid.org/0000-0001-9176-6199"},"institutions":[{"id":"https://openalex.org/I146655781","display_name":"University of Liverpool","ror":"https://ror.org/04xs57h96","country_code":"GB","type":"education","lineage":["https://openalex.org/I146655781"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Kim Clarke","raw_affiliation_strings":["Integrative Systems Biology, University of Liverpool, L69 3BX, Liverpool, UK. kim.clarke@liverpool.ac.uk","Integrative Systems Biology, University of Liverpool, L69 3BX, Liverpool, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Integrative Systems Biology, University of Liverpool, L69 3BX, Liverpool, UK. kim.clarke@liverpool.ac.uk","institution_ids":["https://openalex.org/I146655781"]},{"raw_affiliation_string":"Integrative Systems Biology, University of Liverpool, L69 3BX, Liverpool, UK","institution_ids":["https://openalex.org/I146655781"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082775010","display_name":"Francesco Falciani","orcid":"https://orcid.org/0000-0003-1432-2871"},"institutions":[{"id":"https://openalex.org/I146655781","display_name":"University of Liverpool","ror":"https://ror.org/04xs57h96","country_code":"GB","type":"education","lineage":["https://openalex.org/I146655781"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Francesco Falciani","raw_affiliation_strings":["Integrative Systems Biology, University of Liverpool, L69 3BX, Liverpool, UK. f.falciani@liverpool.ac.uk","Integrative Systems Biology, University of Liverpool, L69 3BX, Liverpool, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Integrative Systems Biology, University of Liverpool, L69 3BX, Liverpool, UK. f.falciani@liverpool.ac.uk","institution_ids":["https://openalex.org/I146655781"]},{"raw_affiliation_string":"Integrative Systems Biology, University of Liverpool, L69 3BX, Liverpool, UK","institution_ids":["https://openalex.org/I146655781"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089973047","display_name":"Marta Cascante","orcid":"https://orcid.org/0000-0002-2062-4633"},"institutions":[{"id":"https://openalex.org/I4210160192","display_name":"Consorci Institut D'Investigacions Biomediques August Pi I Sunyer","ror":"https://ror.org/054vayn55","country_code":"ES","type":"facility","lineage":["https://openalex.org/I4210160192","https://openalex.org/I4387153040"]},{"id":"https://openalex.org/I4210166526","display_name":"Institut de Biologia Molecular de Barcelona","ror":"https://ror.org/05t8khn72","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210166526"]},{"id":"https://openalex.org/I71999127","display_name":"Universitat de Barcelona","ror":"https://ror.org/021018s57","country_code":"ES","type":"education","lineage":["https://openalex.org/I71999127"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Marta Cascante","raw_affiliation_strings":["Departament de Bioquimica i Biologia Molecular, Facultat de Biologia-IBUB, Universitat de Barcelona, 08028, Barcelona, Spain. martacascante@ub.edu","Hospital Cl\u00ednic-Institut d'Investigacions Biomediques August Pi i Sunyer (IDIBAPS), Research Institute, Universitat de Barcelona, C/Villarroel 170, 08036, Barcelona, Spain. martacascante@ub.edu","Departament de Bioquimica i Biologia Molecular, Facultat de Biologia-IBUB, Universitat de Barcelona, 08028, Barcelona, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Departament de Bioquimica i Biologia Molecular, Facultat de Biologia-IBUB, Universitat de Barcelona, 08028, Barcelona, Spain. martacascante@ub.edu","institution_ids":["https://openalex.org/I71999127","https://openalex.org/I4210166526"]},{"raw_affiliation_string":"Hospital Cl\u00ednic-Institut d'Investigacions Biomediques August Pi i Sunyer (IDIBAPS), Research Institute, Universitat de Barcelona, C/Villarroel 170, 08036, Barcelona, Spain. martacascante@ub.edu","institution_ids":["https://openalex.org/I4210160192","https://openalex.org/I71999127"]},{"raw_affiliation_string":"Departament de Bioquimica i Biologia Molecular, Facultat de Biologia-IBUB, Universitat de Barcelona, 08028, Barcelona, Spain","institution_ids":["https://openalex.org/I71999127"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042593224","display_name":"Josep Roca","orcid":"https://orcid.org/0000-0003-4768-8722"},"institutions":[{"id":"https://openalex.org/I4210099160","display_name":"Centro de Investigaci\u00f3n Biom\u00e9dica en Red de Enfermedades Respiratorias","ror":"https://ror.org/0119pby33","country_code":"ES","type":"facility","lineage":["https://openalex.org/I2801357902","https://openalex.org/I4210099160","https://openalex.org/I4210115082","https://openalex.org/I4387152914"]},{"id":"https://openalex.org/I4210160192","display_name":"Consorci Institut D'Investigacions Biomediques August Pi I Sunyer","ror":"https://ror.org/054vayn55","country_code":"ES","type":"facility","lineage":["https://openalex.org/I4210160192","https://openalex.org/I4387153040"]},{"id":"https://openalex.org/I71999127","display_name":"Universitat de Barcelona","ror":"https://ror.org/021018s57","country_code":"ES","type":"education","lineage":["https://openalex.org/I71999127"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Josep Roca","raw_affiliation_strings":["Centro de Investigaci\u00f3n en Red de Enfermedades Respiratorias (CibeRes), 07110, Palma de Mallorca, Spain. jroca@clinic.ub.es","Hospital Cl\u00ednic-Institut d'Investigacions Biomediques August Pi i Sunyer (IDIBAPS), Research Institute, Universitat de Barcelona, C/Villarroel 170, 08036, Barcelona, Spain. jroca@clinic.ub.es","Centro de Investigaci\u00f3n en Red de Enfermedades Respiratorias (CibeRes), 07110, Palma de Mallorca, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centro de Investigaci\u00f3n en Red de Enfermedades Respiratorias (CibeRes), 07110, Palma de Mallorca, Spain. jroca@clinic.ub.es","institution_ids":["https://openalex.org/I4210099160"]},{"raw_affiliation_string":"Hospital Cl\u00ednic-Institut d'Investigacions Biomediques August Pi i Sunyer (IDIBAPS), Research Institute, Universitat de Barcelona, C/Villarroel 170, 08036, Barcelona, Spain. jroca@clinic.ub.es","institution_ids":["https://openalex.org/I4210160192","https://openalex.org/I71999127"]},{"raw_affiliation_string":"Centro de Investigaci\u00f3n en Red de Enfermedades Respiratorias (CibeRes), 07110, Palma de Mallorca, Spain","institution_ids":["https://openalex.org/I4210099160"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101932607","display_name":"Dieter Maier","orcid":"https://orcid.org/0000-0003-1208-2093"},"institutions":[{"id":"https://openalex.org/I105862471","display_name":"Biomax Informatics (Germany)","ror":"https://ror.org/02h1y5y54","country_code":"DE","type":"company","lineage":["https://openalex.org/I105862471"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Dieter Maier","raw_affiliation_strings":["Biomax Informatics AG, D-82152, Planegg, Germany. dieter.maier@biomax.com","Biomax Informatics AG, D-82152, Planegg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biomax Informatics AG, D-82152, Planegg, Germany. dieter.maier@biomax.com","institution_ids":["https://openalex.org/I105862471"]},{"raw_affiliation_string":"Biomax Informatics AG, D-82152, Planegg, Germany","institution_ids":["https://openalex.org/I105862471"]}]}],"institutions":[],"countries_distinct_count":4,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5091191997"],"corresponding_institution_ids":["https://openalex.org/I4210099160","https://openalex.org/I4210160192","https://openalex.org/I71999127"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":1.8794,"has_fulltext":true,"cited_by_count":41,"citation_normalized_percentile":{"value":0.85212938,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"17","issue":"1","first_page":"17","last_page":"17"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9817000031471252,"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":0.9817000031471252,"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":0.003700000001117587,"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/T13283","display_name":"Mental Health Research Topics","score":0.002300000051036477,"subfield":{"id":"https://openalex.org/subfields/3205","display_name":"Experimental and Cognitive Psychology"},"field":{"id":"https://openalex.org/fields/32","display_name":"Psychology"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/chain","display_name":"Chain (unit)","score":0.5361537933349609},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.5055079460144043},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.49042603373527527},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.4741872251033783},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.45829614996910095},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2589007019996643},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.14299806952476501},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.09472057223320007}],"concepts":[{"id":"https://openalex.org/C199185054","wikidata":"https://www.wikidata.org/wiki/Q552299","display_name":"Chain (unit)","level":2,"score":0.5361537933349609},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.5055079460144043},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.49042603373527527},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.4741872251033783},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.45829614996910095},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2589007019996643},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.14299806952476501},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.09472057223320007},{"id":"https://openalex.org/C1276947","wikidata":"https://www.wikidata.org/wiki/Q333","display_name":"Astronomy","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},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","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":"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":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","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":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018482","descriptor_name":"Muscle, Skeletal","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D018482","descriptor_name":"Muscle, Skeletal","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D018482","descriptor_name":"Muscle, Skeletal","qualifier_ui":"Q000378","qualifier_name":"metabolism","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":"D029424","descriptor_name":"Pulmonary Disease, Chronic Obstructive","qualifier_ui":"Q000503","qualifier_name":"physiopathology","is_major_topic":false},{"descriptor_ui":"D029424","descriptor_name":"Pulmonary Disease, Chronic Obstructive","qualifier_ui":"Q000503","qualifier_name":"physiopathology","is_major_topic":false},{"descriptor_ui":"D029424","descriptor_name":"Pulmonary Disease, Chronic Obstructive","qualifier_ui":"Q000503","qualifier_name":"physiopathology","is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D055432","descriptor_name":"Metabolomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055432","descriptor_name":"Metabolomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055432","descriptor_name":"Metabolomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":5,"locations":[{"id":"doi:10.1186/s12859-015-0864-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-015-0864-x","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-015-0864-x","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:26729273","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26729273","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:diposit.ub.edu:2445/68878","is_oa":true,"landing_page_url":"https://hdl.handle.net/2445/68878","pdf_url":null,"source":{"id":"https://openalex.org/S4306401653","display_name":"Dip\u00f2sit Digital de la Universitat de Barcelona (Universitat de Barcelona)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I71999127","host_organization_name":"Universitat de Barcelona","host_organization_lineage":["https://openalex.org/I71999127"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Articles publicats en revistes (Bioqu\u00edmica i Biomedicina Molecular)","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:recercat.cat:2072/257583","is_oa":true,"landing_page_url":"http://hdl.handle.net/2445/68878","pdf_url":null,"source":{"id":"https://openalex.org/S4306402147","display_name":"RECERCAT (Consorci de Serveis Universitaris de Catalunya)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210090028","host_organization_name":"Consorci de Serveis Universitaris de Catalunya","host_organization_lineage":["https://openalex.org/I4210090028"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pubmedcentral.nih.gov:4700624","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4700624","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-015-0864-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-015-0864-x","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-015-0864-x","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/G2010389823","display_name":null,"funder_award_id":"FP7-ICT-2009-270086","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G3872616287","display_name":null,"funder_award_id":"PITN-GA-2010-264780","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G4422312408","display_name":"Metabolic Flux Analysis and Cancer","funder_award_id":"264780","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G4916640921","display_name":null,"funder_award_id":"2009SGR911","funder_id":"https://openalex.org/F4320334830","funder_display_name":"Ag\u00e8ncia de Gesti\u00f3 d'Ajuts Universitaris i de Recerca"},{"id":"https://openalex.org/G5483342299","display_name":null,"funder_award_id":"FP7-ICT","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G7231161857","display_name":null,"funder_award_id":"2009SGR-1308","funder_id":"https://openalex.org/F4320334830","funder_display_name":"Ag\u00e8ncia de Gesti\u00f3 d'Ajuts Universitaris i de Recerca"},{"id":"https://openalex.org/G824650583","display_name":"Modelling and simulation environment for systems medicine\\n(Chronic obstructive pulmonary disease -COPD- as a use case)","funder_award_id":"270086","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/F4320334830","display_name":"Ag\u00e8ncia de Gesti\u00f3 d'Ajuts Universitaris i de Recerca","ror":"https://ror.org/01n4pqe45"},{"id":"https://openalex.org/F4320338370","display_name":"FP7 Information and Communication Technologies","ror":null}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2223415318.pdf","grobid_xml":"https://content.openalex.org/works/W2223415318.grobid-xml"},"referenced_works_count":37,"referenced_works":["https://openalex.org/W1966331733","https://openalex.org/W1968363067","https://openalex.org/W1973247012","https://openalex.org/W1978177843","https://openalex.org/W2003652380","https://openalex.org/W2005659463","https://openalex.org/W2006944023","https://openalex.org/W2008067936","https://openalex.org/W2009405916","https://openalex.org/W2012034410","https://openalex.org/W2017867760","https://openalex.org/W2020541351","https://openalex.org/W2035529325","https://openalex.org/W2040847667","https://openalex.org/W2061767013","https://openalex.org/W2098065746","https://openalex.org/W2100755177","https://openalex.org/W2101833102","https://openalex.org/W2107055030","https://openalex.org/W2112580417","https://openalex.org/W2114049512","https://openalex.org/W2114830914","https://openalex.org/W2116936653","https://openalex.org/W2122410182","https://openalex.org/W2123567288","https://openalex.org/W2123848794","https://openalex.org/W2127351311","https://openalex.org/W2134976939","https://openalex.org/W2148866736","https://openalex.org/W2150059080","https://openalex.org/W2156046391","https://openalex.org/W2160055569","https://openalex.org/W2165054897","https://openalex.org/W2168693035","https://openalex.org/W2168702870","https://openalex.org/W2333452860","https://openalex.org/W4230962320"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W4391913857","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W4396696052"],"abstract_inverted_index":{"BACKGROUND:":[0],"Advances":[1],"in":[2,17,25,48,62,172,204,262,271],"high":[3,76],"throughput":[4],"technologies":[5],"and":[6,50,75,108,126,138,174,229,251,275],"growth":[7],"of":[8,28,31,67,111,146,190,197,207,210,265],"biomedical":[9],"knowledge":[10],"have":[11],"contributed":[12],"to":[13,89,136,199,215,246,258],"an":[14],"exponential":[15],"increase":[16],"associative":[18],"data.":[19],"These":[20],"data":[21,133,240],"can":[22,83,119,186,224,243],"be":[23,120,244],"represented":[24],"the":[26,55,63,147,205,211,263],"form":[27],"complex":[29],"networks":[30,42,171],"biological":[32],"associations,":[33],"which":[34,58,223],"are":[35,59],"suitable":[36],"for":[37,79],"systems":[38],"analyses.":[39],"However,":[40],"these":[41],"usually":[43,60],"lack":[44],"both,":[45],"context":[46,93,127,191,264],"specificity":[47],"time":[49],"space":[51],"as":[52,54],"well":[53],"distinctive":[56],"borders,":[57],"assigned":[61],"classical":[64],"pathway":[65],"view":[66],"molecular":[68,132,193],"events":[69],"(e.g.":[70,94,130],"signal":[71],"transduction).":[72],"This":[73],"complexity":[74],"interconnectedness":[77],"call":[78],"automated":[80],"techniques":[81],"that":[82,113,184],"identify":[84,187,249],"smaller":[85],"targeted":[86,255],"subnetworks":[87,105],"specific":[88,115,128,169,192],"a":[90,95,159,221],"given":[91],"research":[92],"disease":[96,178],"scenario).":[97],"RESULTS:":[98],"Our":[99],"method,":[100],"named":[101],"ChainRank,":[102],"finds":[103],"relevant":[104],"by":[106],"identifying":[107],"scoring":[109],"chains":[110,237],"interactions":[112],"link":[114],"network":[116,142],"components.":[117],"Scores":[118],"generated":[121],"from":[122,134,158],"integrating":[123],"multiple":[124],"general":[125],"measures":[129],"experimental":[131],"expression":[135],"proteomics":[137],"metabolomics,":[139],"literature":[140],"evidence,":[141],"topology).":[143],"The":[144,181],"performance":[145],"novel":[148],"ChainRank":[149,185,219,268],"method":[150],"was":[151,202],"evaluated":[152],"on":[153,234],"recreating":[154],"selected":[155],"signalling":[156],"pathways":[157,213],"human":[160],"protein":[161],"interaction":[162,236],"network.":[163],"Specifically,":[164],"we":[165],"recreated":[166,212],"skeletal":[167],"muscle":[168],"signaling":[170,250],"healthy":[173],"chronic":[175],"obstructive":[176],"pulmonary":[177],"(COPD)":[179],"contexts.":[180],"analysis":[182],"showed":[183],"main":[188],"mediators":[189],"signalling.":[194],"An":[195],"improvement":[196],"up":[198],"factor":[200],"2.5":[201],"shown":[203],"precision":[206],"finding":[208],"proteins":[209],"compared":[214],"random":[216],"simulation.":[217],"CONCLUSIONS:":[218],"provides":[220],"framework,":[222],"integrate":[225],"several":[226],"user-defined":[227],"scores":[228],"evaluate":[230],"their":[231],"combined":[232],"effect":[233],"ranking":[235],"linking":[238],"input":[239],"sets.":[241],"It":[242],"used":[245],"contextualise":[247],"networks,":[248],"regulatory":[252],"path":[253],"amongst":[254],"genes":[256],"or":[257],"analyse":[259],"synthetic":[260],"lethality":[261],"anticancer":[266],"therapy.":[267],"is":[269],"implemented":[270],"R":[272],"programming":[273],"language":[274],"freely":[276],"available":[277],"at":[278],"https://github.com/atenyi/ChainRank.":[279]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":8},{"year":2021,"cited_by_count":11},{"year":2020,"cited_by_count":7},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":4}],"updated_date":"2026-07-02T09:51:11.867554","created_date":"2025-10-10T00:00:00"}
