{"id":"https://openalex.org/W2147937648","doi":"https://doi.org/10.1186/s12918-014-0099-x","title":"KeyPathwayMiner 4.0: condition-specific pathway analysis by combining multiple omics studies and networks with Cytoscape","display_name":"KeyPathwayMiner 4.0: condition-specific pathway analysis by combining multiple omics studies and networks with Cytoscape","publication_year":2014,"publication_date":"2014-08-18","ids":{"openalex":"https://openalex.org/W2147937648","doi":"https://doi.org/10.1186/s12918-014-0099-x","mag":"2147937648","pmid":"https://pubmed.ncbi.nlm.nih.gov/25134827"},"language":"en","primary_location":{"id":"doi:10.1186/s12918-014-0099-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12918-014-0099-x","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/s12918-014-0099-x","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","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 Systems Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/s12918-014-0099-x","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5084541770","display_name":"Nicol\u00e1s Alcaraz","orcid":"https://orcid.org/0000-0003-0839-8423"},"institutions":[{"id":"https://openalex.org/I4210109712","display_name":"Max Planck Institute for Informatics","ror":"https://ror.org/01w19ak89","country_code":"DE","type":"facility","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210109712"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Nicolas Alcaraz","raw_affiliation_strings":["Max Planck Institute for Informatics, Saarbr\u00fccken, Germany. nalcaraz@imada.sdu.dk","Max Planck Institute for Informatics, Saarbr\u00fccken, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Max Planck Institute for Informatics, Saarbr\u00fccken, Germany. nalcaraz@imada.sdu.dk","institution_ids":["https://openalex.org/I4210109712"]},{"raw_affiliation_string":"Max Planck Institute for Informatics, Saarbr\u00fccken, Germany","institution_ids":["https://openalex.org/I4210109712"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112916901","display_name":"Josch K. Pauling","orcid":null},"institutions":[{"id":"https://openalex.org/I177969490","display_name":"University of Southern Denmark","ror":"https://ror.org/03yrrjy16","country_code":"DK","type":"education","lineage":["https://openalex.org/I177969490"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"Josch Pauling","raw_affiliation_strings":["Department of Biochemistry and Molecular Biology, University of Southern Denmark, Odense, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biochemistry and Molecular Biology, University of Southern Denmark, Odense, Denmark","institution_ids":["https://openalex.org/I177969490"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052182874","display_name":"Richa Batra","orcid":"https://orcid.org/0000-0003-3708-0086"},"institutions":[{"id":"https://openalex.org/I177969490","display_name":"University of Southern Denmark","ror":"https://ror.org/03yrrjy16","country_code":"DK","type":"education","lineage":["https://openalex.org/I177969490"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"Richa Batra","raw_affiliation_strings":["Department of Mathematics and Computer Science, University of Southern Denmark, Odense, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Mathematics and Computer Science, University of Southern Denmark, Odense, Denmark","institution_ids":["https://openalex.org/I177969490"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111490271","display_name":"Eudes Barbosa","orcid":null},"institutions":[{"id":"https://openalex.org/I110200422","display_name":"Universidade Federal de Minas Gerais","ror":"https://ror.org/0176yjw32","country_code":"BR","type":"education","lineage":["https://openalex.org/I110200422"]},{"id":"https://openalex.org/I177969490","display_name":"University of Southern Denmark","ror":"https://ror.org/03yrrjy16","country_code":"DK","type":"education","lineage":["https://openalex.org/I177969490"]}],"countries":["BR","DK"],"is_corresponding":false,"raw_author_name":"Eudes Barbosa","raw_affiliation_strings":["Department of Mathematics and Computer Science, University of Southern Denmark, Odense, Denmark","Institute of Biological Sciences, Laboratory of Molecular and Cellular Genetic, Federal University of Minas Gerais, Belo Horizonte, Brazil"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Mathematics and Computer Science, University of Southern Denmark, Odense, Denmark","institution_ids":["https://openalex.org/I177969490"]},{"raw_affiliation_string":"Institute of Biological Sciences, Laboratory of Molecular and Cellular Genetic, Federal University of Minas Gerais, Belo Horizonte, Brazil","institution_ids":["https://openalex.org/I110200422"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006363776","display_name":"Alexander Junge","orcid":"https://orcid.org/0000-0002-2410-9671"},"institutions":[{"id":"https://openalex.org/I124055696","display_name":"University of Copenhagen","ror":"https://ror.org/035b05819","country_code":"DK","type":"education","lineage":["https://openalex.org/I124055696"]},{"id":"https://openalex.org/I4210109712","display_name":"Max Planck Institute for Informatics","ror":"https://ror.org/01w19ak89","country_code":"DE","type":"facility","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210109712"]},{"id":"https://openalex.org/I91712215","display_name":"Saarland University","ror":"https://ror.org/01jdpyv68","country_code":"DE","type":"education","lineage":["https://openalex.org/I91712215"]}],"countries":["DE","DK"],"is_corresponding":false,"raw_author_name":"Alexander Junge","raw_affiliation_strings":["Center for non-coding RNA in Technology and Health, Section for Animal Genetics, Bioinformatics and Breeding, University of Copenhagen, Frederiksberg, Denmark","Cluster of Excellence for Multimodal Computing and Interaction, Saarland University, Saarbr\u00fccken, Germany","Max Planck Institute for Informatics, Saarbr\u00fccken, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for non-coding RNA in Technology and Health, Section for Animal Genetics, Bioinformatics and Breeding, University of Copenhagen, Frederiksberg, Denmark","institution_ids":["https://openalex.org/I124055696"]},{"raw_affiliation_string":"Cluster of Excellence for Multimodal Computing and Interaction, Saarland University, Saarbr\u00fccken, Germany","institution_ids":["https://openalex.org/I91712215"]},{"raw_affiliation_string":"Max Planck Institute for Informatics, Saarbr\u00fccken, Germany","institution_ids":["https://openalex.org/I4210109712"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5108527349","display_name":"Anne GL Christensen","orcid":null},"institutions":[{"id":"https://openalex.org/I177969490","display_name":"University of Southern Denmark","ror":"https://ror.org/03yrrjy16","country_code":"DK","type":"education","lineage":["https://openalex.org/I177969490"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"Anne GL Christensen","raw_affiliation_strings":["Department of Cancer and Inflammation Research, Institute of Molecular Medicine, University of Southern Denmark, Odense, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cancer and Inflammation Research, Institute of Molecular Medicine, University of Southern Denmark, Odense, Denmark","institution_ids":["https://openalex.org/I177969490"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090969979","display_name":"Vasco Azevedo","orcid":"https://orcid.org/0000-0002-4775-2280"},"institutions":[{"id":"https://openalex.org/I110200422","display_name":"Universidade Federal de Minas Gerais","ror":"https://ror.org/0176yjw32","country_code":"BR","type":"education","lineage":["https://openalex.org/I110200422"]}],"countries":["BR"],"is_corresponding":false,"raw_author_name":"Vasco Azevedo","raw_affiliation_strings":["Institute of Biological Sciences, Laboratory of Molecular and Cellular Genetic, Federal University of Minas Gerais, Belo Horizonte, Brazil"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Biological Sciences, Laboratory of Molecular and Cellular Genetic, Federal University of Minas Gerais, Belo Horizonte, Brazil","institution_ids":["https://openalex.org/I110200422"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011720560","display_name":"Henrik J. Ditzel","orcid":"https://orcid.org/0000-0003-3927-5135"},"institutions":[{"id":"https://openalex.org/I177969490","display_name":"University of Southern Denmark","ror":"https://ror.org/03yrrjy16","country_code":"DK","type":"education","lineage":["https://openalex.org/I177969490"]},{"id":"https://openalex.org/I2801498763","display_name":"Odense University Hospital","ror":"https://ror.org/00ey0ed83","country_code":"DK","type":"funder","lineage":["https://openalex.org/I2801498763"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"Henrik J Ditzel","raw_affiliation_strings":["Department of Cancer and Inflammation Research, Institute of Molecular Medicine, University of Southern Denmark, Odense, Denmark","Department of Oncology, Odense University Hospital, Odense, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cancer and Inflammation Research, Institute of Molecular Medicine, University of Southern Denmark, Odense, Denmark","institution_ids":["https://openalex.org/I177969490"]},{"raw_affiliation_string":"Department of Oncology, Odense University Hospital, Odense, Denmark","institution_ids":["https://openalex.org/I2801498763"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5073222532","display_name":"Jan Baumbach","orcid":"https://orcid.org/0000-0002-0282-0462"},"institutions":[{"id":"https://openalex.org/I177969490","display_name":"University of Southern Denmark","ror":"https://ror.org/03yrrjy16","country_code":"DK","type":"education","lineage":["https://openalex.org/I177969490"]},{"id":"https://openalex.org/I4210109712","display_name":"Max Planck Institute for Informatics","ror":"https://ror.org/01w19ak89","country_code":"DE","type":"facility","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210109712"]},{"id":"https://openalex.org/I91712215","display_name":"Saarland University","ror":"https://ror.org/01jdpyv68","country_code":"DE","type":"education","lineage":["https://openalex.org/I91712215"]}],"countries":["DE","DK"],"is_corresponding":false,"raw_author_name":"Jan Baumbach","raw_affiliation_strings":["Cluster of Excellence for Multimodal Computing and Interaction, Saarland University, Saarbr\u00fccken, Germany","Department of Mathematics and Computer Science, University of Southern Denmark, Odense, Denmark","Max Planck Institute for Informatics, Saarbr\u00fccken, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Cluster of Excellence for Multimodal Computing and Interaction, Saarland University, Saarbr\u00fccken, Germany","institution_ids":["https://openalex.org/I91712215"]},{"raw_affiliation_string":"Department of Mathematics and Computer Science, University of Southern Denmark, Odense, Denmark","institution_ids":["https://openalex.org/I177969490"]},{"raw_affiliation_string":"Max Planck Institute for Informatics, Saarbr\u00fccken, Germany","institution_ids":["https://openalex.org/I4210109712"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5084541770"],"corresponding_institution_ids":["https://openalex.org/I4210109712"],"apc_list":{"value":2290,"currency":"USD","value_usd":2290},"apc_paid":{"value":2290,"currency":"USD","value_usd":2290},"fwci":3.8005,"has_fulltext":true,"cited_by_count":70,"citation_normalized_percentile":{"value":0.94428658,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":93,"max":99},"biblio":{"volume":"8","issue":"1","first_page":"99","last_page":"99"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.968999981880188,"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":0.968999981880188,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.0052999998442828655,"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":0.004000000189989805,"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/systems-biology","display_name":"Systems biology","score":0.7127594351768494},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6022153496742249},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.461304247379303},{"id":"https://openalex.org/keywords/omics","display_name":"Omics","score":0.4326724112033844},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4056745171546936},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3635217845439911},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.3609614372253418}],"concepts":[{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.7127594351768494},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6022153496742249},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.461304247379303},{"id":"https://openalex.org/C157585117","wikidata":"https://www.wikidata.org/wiki/Q158666","display_name":"Omics","level":2,"score":0.4326724112033844},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4056745171546936},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3635217845439911},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3609614372253418}],"mesh":[{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","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":"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":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/s12918-014-0099-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12918-014-0099-x","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/s12918-014-0099-x","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","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 Systems Biology","raw_type":"journal-article"},{"id":"pmid:25134827","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25134827","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 systems biology","raw_type":"Journal Article"},{"id":"pmh:oai:sdu.dk:openaire_cris_publications/8650d34e-152b-4f74-a1f5-e58c949e2462","is_oa":false,"landing_page_url":"https://portal.findresearcher.sdu.dk/da/publications/8650d34e-152b-4f74-a1f5-e58c949e2462","pdf_url":null,"source":{"id":"https://openalex.org/S4306400423","display_name":"University of Southern Denmark Research Portal (University of Southern Denmark)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I177969490","host_organization_name":"University of Southern Denmark","host_organization_lineage":["https://openalex.org/I177969490"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Alcaraz, N, Pauling, J, Batra, R, Barbosa, E, Junge, A, Christensen, A G, Azevedo, V, Ditzel, H J & Baumbach, J 2014, 'KeyPathwayMiner 4.0 : condition-specific pathway analysis by combining multiple omics studies and networks with Cytoscape', BMC Systems Biology, vol. 8, no. 1. https://doi.org/10.1186/s12918-014-0099-x","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pubmedcentral.nih.gov:4236746","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4236746","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 Syst Biol","raw_type":"Text"},{"id":"pmh:oai:escidoc.org:escidoc:2072321","is_oa":false,"landing_page_url":"http://hdl.handle.net/11858/00-001M-0000-0024-6C98-D","pdf_url":null,"source":{"id":"https://openalex.org/S7407052962","display_name":"Max Planck Digital Library","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210088280","host_organization_name":"Max Planck Digital Library","host_organization_lineage":["https://openalex.org/I4210088280"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1186/s12918-014-0099-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12918-014-0099-x","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/s12918-014-0099-x","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","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 Systems Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320310490","display_name":"Villum Fonden","ror":"https://ror.org/007ww2d15"},{"id":"https://openalex.org/F4320321091","display_name":"Coordena\u00e7\u00e3o de Aperfei\u00e7oamento de Pessoal de N\u00edvel Superior","ror":"https://ror.org/00x0ma614"},{"id":"https://openalex.org/F4320321739","display_name":"Consejo Nacional de Ciencia y Tecnolog\u00eda","ror":"https://ror.org/059ex5q34"},{"id":"https://openalex.org/F4320328088","display_name":"Consejo Nacional de Ciencia y Tecnolog\u00eda, Paraguay","ror":"https://ror.org/00aejfc65"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2147937648.pdf","grobid_xml":"https://content.openalex.org/works/W2147937648.grobid-xml"},"referenced_works_count":15,"referenced_works":["https://openalex.org/W1876024155","https://openalex.org/W1987816069","https://openalex.org/W2006771504","https://openalex.org/W2034250960","https://openalex.org/W2059232554","https://openalex.org/W2097508475","https://openalex.org/W2112811019","https://openalex.org/W2113665677","https://openalex.org/W2117506928","https://openalex.org/W2122863289","https://openalex.org/W2131474316","https://openalex.org/W2137937261","https://openalex.org/W2143627094","https://openalex.org/W2159675211","https://openalex.org/W2262414037"],"related_works":["https://openalex.org/W177137871","https://openalex.org/W4292302930","https://openalex.org/W4386960635","https://openalex.org/W2594649246","https://openalex.org/W2924366642","https://openalex.org/W3184567430","https://openalex.org/W4286491824","https://openalex.org/W5284979","https://openalex.org/W4245853730","https://openalex.org/W3195112886"],"abstract_inverted_index":{"BACKGROUND:":[0],"Over":[1],"the":[2,35,137,157],"last":[3],"decade":[4],"network":[5,18,160],"enrichment":[6],"analysis":[7,58,161],"has":[8,150],"become":[9],"popular":[10],"in":[11,131,181],"computational":[12],"systems":[13],"biology":[14],"to":[15,68,91,104],"elucidate":[16],"aberrant":[17,74],"modules.":[19],"Traditionally,":[20],"these":[21,63],"approaches":[22],"focus":[23],"on":[24,73],"combining":[25],"gene":[26,99],"expression":[27],"data":[28,45,67,96,110],"with":[29],"protein-protein":[30],"interaction":[31],"(PPI)":[32],"networks.":[33,76],"Nowadays,":[34],"so-called":[36],"omics":[37,95,109],"technologies":[38],"allow":[39],"for":[40,57,156,173],"inclusion":[41],"of":[42,66,83,93,145],"many":[43],"more":[44],"sets,":[46,97],"e.g.":[47,98],"protein":[48],"phosphorylation":[49],"or":[50,186],"epigenetic":[51],"modifications.":[52],"This":[53],"creates":[54],"a":[55,70,80,121,132,143,170],"need":[56],"methods":[59],"that":[60,87,126],"can":[61,114],"combine":[62,106],"various":[64],"sources":[65],"obtain":[69],"systems-level":[71],"view":[72],"biological":[75],"RESULTS:":[77],"We":[78],"present":[79],"new":[81,138],"release":[82,139],"KeyPathwayMiner":[84,166],"(version":[85],"4.0)":[86],"is":[88,102,179],"not":[89],"limited":[90],"analyses":[92],"single":[94],"expression,":[100],"but":[101],"able":[103],"directly":[105],"several":[107],"different":[108],"types.":[111],"Version":[112],"4.0":[113],"further":[115],"integrate":[116],"existing":[117],"knowledge":[118],"by":[119],"adding":[120],"search":[122],"bias":[123],"towards":[124],"sub-networks":[125],"contain":[127],"(avoid)":[128],"genes":[129],"provided":[130],"positive":[133],"(negative)":[134],"list.":[135],"Finally":[136],"now":[140],"also":[141],"provides":[142],"set":[144],"novel":[146],"visualization":[147],"features":[148],"and":[149],"been":[151],"implemented":[152],"as":[153],"an":[154],"app":[155,172,183],"standard":[158],"bioinformatics":[159],"tool:":[162],"Cytoscape.":[163],"CONCLUSION:":[164],"With":[165],"4.0,":[167],"we":[168],"publish":[169],"Cytoscape":[171],"multi-omics":[174],"based":[175],"sub-network":[176],"extraction.":[177],"It":[178],"available":[180],"Cytoscape's":[182],"store":[184],"http://apps.cytoscape.org/apps/keypathwayminer":[185],"via":[187],"http://keypathwayminer.mpi-inf.mpg.de.":[188]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":7},{"year":2021,"cited_by_count":7},{"year":2020,"cited_by_count":5},{"year":2019,"cited_by_count":9},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":12},{"year":2016,"cited_by_count":11},{"year":2015,"cited_by_count":4},{"year":2014,"cited_by_count":2}],"updated_date":"2026-08-26T07:47:46.906454","created_date":"2025-10-10T00:00:00"}
