{"id":"https://openalex.org/W2739902663","doi":"https://doi.org/10.1371/journal.pcbi.1005694","title":"PCSF: An R-package for network-based interpretation of high-throughput data","display_name":"PCSF: An R-package for network-based interpretation of high-throughput data","publication_year":2017,"publication_date":"2017-07-31","ids":{"openalex":"https://openalex.org/W2739902663","doi":"https://doi.org/10.1371/journal.pcbi.1005694","mag":"2739902663","pmid":"https://pubmed.ncbi.nlm.nih.gov/28759592"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1005694","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1005694","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1005694&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1005694&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5102975491","display_name":"Murodzhon Akhmedov","orcid":"https://orcid.org/0000-0002-2498-3780"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I15196421","display_name":"University of Applied Sciences and Arts of Southern Switzerland","ror":"https://ror.org/05ep8g269","country_code":"CH","type":"education","lineage":["https://openalex.org/I15196421"]},{"id":"https://openalex.org/I2614128279","display_name":"Dalle Molle Institute for Artificial Intelligence Research","ror":"https://ror.org/013355g38","country_code":"CH","type":"facility","lineage":["https://openalex.org/I15196421","https://openalex.org/I2614128279","https://openalex.org/I57201433"]},{"id":"https://openalex.org/I4210101830","display_name":"Institute of Oncology Research","ror":"https://ror.org/01dpyn972","country_code":"CH","type":"facility","lineage":["https://openalex.org/I4210101830","https://openalex.org/I57201433"]},{"id":"https://openalex.org/I4210110987","display_name":"IIT@MIT","ror":"https://ror.org/01wp8zh54","country_code":"US","type":"facility","lineage":["https://openalex.org/I30771326","https://openalex.org/I4210110987"]}],"countries":["CH","US"],"is_corresponding":false,"raw_author_name":"Murodzhon Akhmedov","raw_affiliation_strings":["Dalle Molle Institute for Artificial Intelligence Research (USI/SUPSI), Manno, Switzerland","Department of Biological Engineering, MIT, Cambridge, Massachusetts, United States of America","Institute of Oncology Research (IOR), Bellinzona, Switzerland","Swiss Institute of Bioinformatics (SIB), Lausanne, Switzerland"],"affiliations":[{"raw_affiliation_string":"Dalle Molle Institute for Artificial Intelligence Research (USI/SUPSI), Manno, Switzerland","institution_ids":["https://openalex.org/I2614128279","https://openalex.org/I15196421"]},{"raw_affiliation_string":"Department of Biological Engineering, MIT, Cambridge, Massachusetts, United States of America","institution_ids":["https://openalex.org/I4210110987"]},{"raw_affiliation_string":"Institute of Oncology Research (IOR), Bellinzona, Switzerland","institution_ids":["https://openalex.org/I4210101830"]},{"raw_affiliation_string":"Swiss Institute of Bioinformatics (SIB), Lausanne, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022792225","display_name":"Amanda J. Kedaigle","orcid":"https://orcid.org/0000-0001-6156-5046"},"institutions":[{"id":"https://openalex.org/I4210110987","display_name":"IIT@MIT","ror":"https://ror.org/01wp8zh54","country_code":"US","type":"facility","lineage":["https://openalex.org/I30771326","https://openalex.org/I4210110987"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Amanda Kedaigle","raw_affiliation_strings":["Department of Biological Engineering, MIT, Cambridge, Massachusetts, United States of America"],"affiliations":[{"raw_affiliation_string":"Department of Biological Engineering, MIT, Cambridge, Massachusetts, United States of America","institution_ids":["https://openalex.org/I4210110987"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112790787","display_name":"Renan Escalante Chong","orcid":null},"institutions":[{"id":"https://openalex.org/I4210110987","display_name":"IIT@MIT","ror":"https://ror.org/01wp8zh54","country_code":"US","type":"facility","lineage":["https://openalex.org/I30771326","https://openalex.org/I4210110987"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Renan Escalante Chong","raw_affiliation_strings":["Department of Biological Engineering, MIT, Cambridge, Massachusetts, United States of America"],"affiliations":[{"raw_affiliation_string":"Department of Biological Engineering, MIT, Cambridge, Massachusetts, United States of America","institution_ids":["https://openalex.org/I4210110987"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017492288","display_name":"Roberto Montemanni","orcid":"https://orcid.org/0000-0002-0229-0465"},"institutions":[{"id":"https://openalex.org/I15196421","display_name":"University of Applied Sciences and Arts of Southern Switzerland","ror":"https://ror.org/05ep8g269","country_code":"CH","type":"education","lineage":["https://openalex.org/I15196421"]},{"id":"https://openalex.org/I2614128279","display_name":"Dalle Molle Institute for Artificial Intelligence Research","ror":"https://ror.org/013355g38","country_code":"CH","type":"facility","lineage":["https://openalex.org/I15196421","https://openalex.org/I2614128279","https://openalex.org/I57201433"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Roberto Montemanni","raw_affiliation_strings":["Dalle Molle Institute for Artificial Intelligence Research (USI/SUPSI), Manno, Switzerland"],"affiliations":[{"raw_affiliation_string":"Dalle Molle Institute for Artificial Intelligence Research (USI/SUPSI), Manno, Switzerland","institution_ids":["https://openalex.org/I2614128279","https://openalex.org/I15196421"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066518317","display_name":"Francesco Bertoni","orcid":"https://orcid.org/0000-0001-5637-8983"},"institutions":[{"id":"https://openalex.org/I4210101830","display_name":"Institute of Oncology Research","ror":"https://ror.org/01dpyn972","country_code":"CH","type":"facility","lineage":["https://openalex.org/I4210101830","https://openalex.org/I57201433"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Francesco Bertoni","raw_affiliation_strings":["Institute of Oncology Research (IOR), Bellinzona, Switzerland"],"affiliations":[{"raw_affiliation_string":"Institute of Oncology Research (IOR), Bellinzona, Switzerland","institution_ids":["https://openalex.org/I4210101830"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5043876367","display_name":"Ernest Fraenkel","orcid":"https://orcid.org/0000-0001-9249-8181"},"institutions":[{"id":"https://openalex.org/I4210110987","display_name":"IIT@MIT","ror":"https://ror.org/01wp8zh54","country_code":"US","type":"facility","lineage":["https://openalex.org/I30771326","https://openalex.org/I4210110987"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Ernest Fraenkel","raw_affiliation_strings":["Department of Biological Engineering, MIT, Cambridge, Massachusetts, United States of America"],"affiliations":[{"raw_affiliation_string":"Department of Biological Engineering, MIT, Cambridge, Massachusetts, United States of America","institution_ids":["https://openalex.org/I4210110987"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5079771818","display_name":"Ivo Kwee","orcid":"https://orcid.org/0000-0002-2751-4218"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I15196421","display_name":"University of Applied Sciences and Arts of Southern Switzerland","ror":"https://ror.org/05ep8g269","country_code":"CH","type":"education","lineage":["https://openalex.org/I15196421"]},{"id":"https://openalex.org/I2614128279","display_name":"Dalle Molle Institute for Artificial Intelligence Research","ror":"https://ror.org/013355g38","country_code":"CH","type":"facility","lineage":["https://openalex.org/I15196421","https://openalex.org/I2614128279","https://openalex.org/I57201433"]},{"id":"https://openalex.org/I4210101830","display_name":"Institute of Oncology Research","ror":"https://ror.org/01dpyn972","country_code":"CH","type":"facility","lineage":["https://openalex.org/I4210101830","https://openalex.org/I57201433"]}],"countries":["CH"],"is_corresponding":true,"raw_author_name":"Ivo Kwee","raw_affiliation_strings":["Dalle Molle Institute for Artificial Intelligence Research (USI/SUPSI), Manno, Switzerland","Institute of Oncology Research (IOR), Bellinzona, Switzerland","Swiss Institute of Bioinformatics (SIB), Lausanne, Switzerland"],"affiliations":[{"raw_affiliation_string":"Dalle Molle Institute for Artificial Intelligence Research (USI/SUPSI), Manno, Switzerland","institution_ids":["https://openalex.org/I2614128279","https://openalex.org/I15196421"]},{"raw_affiliation_string":"Institute of Oncology Research (IOR), Bellinzona, Switzerland","institution_ids":["https://openalex.org/I4210101830"]},{"raw_affiliation_string":"Swiss Institute of Bioinformatics (SIB), Lausanne, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5043876367","https://openalex.org/A5079771818"],"corresponding_institution_ids":["https://openalex.org/I12708293","https://openalex.org/I15196421","https://openalex.org/I2614128279","https://openalex.org/I4210101830","https://openalex.org/I4210110987"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":1.9085,"has_fulltext":true,"cited_by_count":64,"citation_normalized_percentile":{"value":0.86200062,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":96,"max":100},"biblio":{"volume":"13","issue":"7","first_page":"e1005694","last_page":"e1005694"},"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/T10836","display_name":"Metabolomics and Mass Spectrometry Studies","score":0.9980000257492065,"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":0.9955000281333923,"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/subnetwork","display_name":"Subnetwork","score":0.8938822746276855},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7610604763031006},{"id":"https://openalex.org/keywords/throughput","display_name":"Throughput","score":0.6407010555267334},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.617511510848999},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5476606488227844},{"id":"https://openalex.org/keywords/r-package","display_name":"R package","score":0.5448929071426392},{"id":"https://openalex.org/keywords/biological-data","display_name":"Biological data","score":0.5272972583770752},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.440989226102829},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.4362891912460327},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.30345380306243896},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.24432078003883362},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.23450660705566406},{"id":"https://openalex.org/keywords/computer-network","display_name":"Computer network","score":0.14907264709472656},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1388585865497589},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.08371376991271973}],"concepts":[{"id":"https://openalex.org/C2780186347","wikidata":"https://www.wikidata.org/wiki/Q11414","display_name":"Subnetwork","level":2,"score":0.8938822746276855},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7610604763031006},{"id":"https://openalex.org/C157764524","wikidata":"https://www.wikidata.org/wiki/Q1383412","display_name":"Throughput","level":3,"score":0.6407010555267334},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.617511510848999},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5476606488227844},{"id":"https://openalex.org/C2984074130","wikidata":"https://www.wikidata.org/wiki/Q73539779","display_name":"R package","level":2,"score":0.5448929071426392},{"id":"https://openalex.org/C201797286","wikidata":"https://www.wikidata.org/wiki/Q4914986","display_name":"Biological data","level":2,"score":0.5272972583770752},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.440989226102829},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.4362891912460327},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.30345380306243896},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.24432078003883362},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.23450660705566406},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.14907264709472656},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1388585865497589},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.08371376991271973},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","level":1,"score":0.0},{"id":"https://openalex.org/C555944384","wikidata":"https://www.wikidata.org/wiki/Q249","display_name":"Wireless","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","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":"D057166","descriptor_name":"High-Throughput Screening Assays","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057166","descriptor_name":"High-Throughput Screening Assays","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057166","descriptor_name":"High-Throughput Screening Assays","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":7,"locations":[{"id":"doi:10.1371/journal.pcbi.1005694","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1005694","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1005694&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:28759592","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/28759592","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:iris.unimore.it:11380/1176640","is_oa":true,"landing_page_url":"http://hdl.handle.net/11380/1176640","pdf_url":"http://hdl.handle.net/11380/1176640","source":{"id":"https://openalex.org/S4306400718","display_name":"IRIS UNIMORE (University of Modena and Reggio Emilia)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I122346577","host_organization_name":"University of Modena and Reggio Emilia","host_organization_lineage":["https://openalex.org/I122346577"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:RePEc:plo:pcbi00:1005694","is_oa":false,"landing_page_url":"https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1005694","pdf_url":null,"source":{"id":"https://openalex.org/S4306401271","display_name":"RePEc: Research Papers in Economics","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I77793887","host_organization_name":"Federal Reserve Bank of St. Louis","host_organization_lineage":["https://openalex.org/I77793887"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article"},{"id":"pmh:oai:doaj.org/article:d91421e4a0504a68a1b0b7c3b6e83ef5","is_oa":true,"landing_page_url":"https://doaj.org/article/d91421e4a0504a68a1b0b7c3b6e83ef5","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 13, Iss 7, p e1005694 (2017)","raw_type":"article"},{"id":"pmh:oai:figshare.com:article/5262766","is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/PCSF_An_R-package_for_network-based_interpretation_of_high-throughput_data/5262766","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"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":"","raw_type":"Dataset"},{"id":"pmh:oai:pubmedcentral.nih.gov:5552342","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5552342","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1005694","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1005694","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1005694&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/15","score":0.6899999976158142,"display_name":"Life in Land"}],"awards":[{"id":"https://openalex.org/G1277458934","display_name":null,"funder_award_id":"U01-CA-184898","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G2433414671","display_name":null,"funder_award_id":"205321-147138/1","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"},{"id":"https://openalex.org/G3334581696","display_name":"Travail social et citoyennet\u00e9 dans la gouvernance urbaine. Trois projets d'intervention adress\u00e9s aux Roms dans trois villes europ\u00e9ennes.","funder_award_id":"184898","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"},{"id":"https://openalex.org/G4083164270","display_name":null,"funder_award_id":"20532","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"},{"id":"https://openalex.org/G4235210265","display_name":"Steiner Trees for Functional Analysis in Cancer System Biology","funder_award_id":"147138","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"},{"id":"https://openalex.org/G5889873661","display_name":null,"funder_award_id":"U54-NS-091046","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7666092790","display_name":null,"funder_award_id":"205321","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"},{"id":"https://openalex.org/G848032724","display_name":null,"funder_award_id":"Science","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320320924","display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung","ror":"https://ror.org/00yjd3n13"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2739902663.pdf","grobid_xml":"https://content.openalex.org/works/W2739902663.grobid-xml"},"referenced_works_count":16,"referenced_works":["https://openalex.org/W2001362056","https://openalex.org/W2022480285","https://openalex.org/W2042778855","https://openalex.org/W2057545775","https://openalex.org/W2070050178","https://openalex.org/W2104843251","https://openalex.org/W2130753161","https://openalex.org/W2133074013","https://openalex.org/W2165681080","https://openalex.org/W2171662214","https://openalex.org/W2174632898","https://openalex.org/W2211667058","https://openalex.org/W2338223499","https://openalex.org/W2395887422","https://openalex.org/W2618612478","https://openalex.org/W2746067691"],"related_works":["https://openalex.org/W2478888221","https://openalex.org/W2095452756","https://openalex.org/W2155492529","https://openalex.org/W15348386","https://openalex.org/W4252504573","https://openalex.org/W2521885831","https://openalex.org/W4385510321","https://openalex.org/W1979360205","https://openalex.org/W2494457055","https://openalex.org/W2587303152"],"abstract_inverted_index":{"With":[0],"the":[1,16,28,58,79,100,112,126],"recent":[2],"technological":[3],"developments":[4],"a":[5,53,82,104],"vast":[6],"amount":[7],"of":[8,18,74,119],"high-throughput":[9,39,75],"data":[10,29,40,76,80],"has":[11],"been":[12],"profiled":[13],"to":[14,26,111,117],"understand":[15],"mechanism":[17],"complex":[19],"diseases.":[20],"The":[21,65],"current":[22],"bioinformatics":[23],"challenge":[24],"is":[25],"interpret":[27],"and":[30,70],"underlying":[31],"biology,":[32],"where":[33],"efficient":[34],"algorithms":[35],"for":[36],"analyzing":[37],"heterogeneous":[38],"using":[41],"biological":[42,83],"networks":[43,84,102],"are":[44],"becoming":[45],"increasingly":[46],"valuable.":[47],"In":[48],"this":[49],"paper,":[50],"we":[51],"propose":[52],"software":[54],"package":[55,67],"based":[56,97],"on":[57],"Prize-collecting":[59],"Steiner":[60],"Forest":[61],"graph":[62],"optimization":[63],"approach.":[64],"PCSF":[66],"performs":[68],"fast":[69],"user-friendly":[71],"network":[72],"analysis":[73],"by":[77],"mapping":[78],"onto":[81],"such":[85],"as":[86,103],"protein-protein":[87],"interaction,":[88],"gene-gene":[89],"interaction":[90,101],"or":[91,95],"any":[92],"other":[93],"correlation":[94],"coexpression":[96],"networks.":[98],"Using":[99],"template,":[105],"it":[106],"determines":[107],"high-confidence":[108],"subnetworks":[109],"relevant":[110],"data,":[113],"which":[114],"potentially":[115],"leads":[116],"predictions":[118],"functional":[120,130],"units.":[121],"It":[122],"also":[123],"interactively":[124],"visualizes":[125],"resulting":[127],"subnetwork":[128],"with":[129],"enrichment":[131],"analysis.":[132]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":17},{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":4},{"year":2022,"cited_by_count":14},{"year":2021,"cited_by_count":6},{"year":2020,"cited_by_count":9},{"year":2019,"cited_by_count":4},{"year":2018,"cited_by_count":4}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}