{"id":"https://openalex.org/W3041614998","doi":"https://doi.org/10.1093/bioinformatics/btaa590","title":"Predicting mechanism of action of cellular perturbations with pathway activity signatures","display_name":"Predicting mechanism of action of cellular perturbations with pathway activity signatures","publication_year":2020,"publication_date":"2020-07-03","ids":{"openalex":"https://openalex.org/W3041614998","doi":"https://doi.org/10.1093/bioinformatics/btaa590","mag":"3041614998","pmid":"https://pubmed.ncbi.nlm.nih.gov/32653926"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btaa590","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa590","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7751003","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100644436","display_name":"Yan Ren","orcid":"https://orcid.org/0000-0002-8327-5346"},"institutions":[{"id":"https://openalex.org/I63135867","display_name":"University of Cincinnati","ror":"https://ror.org/01e3m7079","country_code":"US","type":"education","lineage":["https://openalex.org/I63135867"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yan Ren","raw_affiliation_strings":["Division of Biostatistics and Bioinformatics, Department of Environmental Health, University of Cincinnati , Cincinnati, OH 45267-0056, USA"],"affiliations":[{"raw_affiliation_string":"Division of Biostatistics and Bioinformatics, Department of Environmental Health, University of Cincinnati , Cincinnati, OH 45267-0056, USA","institution_ids":["https://openalex.org/I63135867"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002224386","display_name":"Siva Sivaganesan","orcid":null},"institutions":[{"id":"https://openalex.org/I63135867","display_name":"University of Cincinnati","ror":"https://ror.org/01e3m7079","country_code":"US","type":"education","lineage":["https://openalex.org/I63135867"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Siva Sivaganesan","raw_affiliation_strings":["Department of Mathematical Sciences, University of Cincinnati , Cincinnati, OH 45221-0025, USA"],"affiliations":[{"raw_affiliation_string":"Department of Mathematical Sciences, University of Cincinnati , Cincinnati, OH 45221-0025, USA","institution_ids":["https://openalex.org/I63135867"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5034948347","display_name":"Nicholas A. Clark","orcid":"https://orcid.org/0000-0003-0105-9605"},"institutions":[{"id":"https://openalex.org/I63135867","display_name":"University of Cincinnati","ror":"https://ror.org/01e3m7079","country_code":"US","type":"education","lineage":["https://openalex.org/I63135867"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nicholas A Clark","raw_affiliation_strings":["Division of Biostatistics and Bioinformatics, Department of Environmental Health, University of Cincinnati , Cincinnati, OH 45267-0056, USA"],"affiliations":[{"raw_affiliation_string":"Division of Biostatistics and Bioinformatics, Department of Environmental Health, University of Cincinnati , Cincinnati, OH 45267-0056, USA","institution_ids":["https://openalex.org/I63135867"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100350695","display_name":"Lixia Zhang","orcid":"https://orcid.org/0000-0002-9463-6039"},"institutions":[{"id":"https://openalex.org/I63135867","display_name":"University of Cincinnati","ror":"https://ror.org/01e3m7079","country_code":"US","type":"education","lineage":["https://openalex.org/I63135867"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lixia Zhang","raw_affiliation_strings":["Division of Biostatistics and Bioinformatics, Department of Environmental Health, University of Cincinnati , Cincinnati, OH 45267-0056, USA"],"affiliations":[{"raw_affiliation_string":"Division of Biostatistics and Bioinformatics, Department of Environmental Health, University of Cincinnati , Cincinnati, OH 45267-0056, USA","institution_ids":["https://openalex.org/I63135867"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078818594","display_name":"Jacek Biesiada","orcid":"https://orcid.org/0000-0003-0435-2225"},"institutions":[{"id":"https://openalex.org/I63135867","display_name":"University of Cincinnati","ror":"https://ror.org/01e3m7079","country_code":"US","type":"education","lineage":["https://openalex.org/I63135867"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jacek Biesiada","raw_affiliation_strings":["Division of Biostatistics and Bioinformatics, Department of Environmental Health, University of Cincinnati , Cincinnati, OH 45267-0056, USA"],"affiliations":[{"raw_affiliation_string":"Division of Biostatistics and Bioinformatics, Department of Environmental Health, University of Cincinnati , Cincinnati, OH 45267-0056, USA","institution_ids":["https://openalex.org/I63135867"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103758318","display_name":"Wen Niu","orcid":"https://orcid.org/0000-0003-4927-5200"},"institutions":[{"id":"https://openalex.org/I63135867","display_name":"University of Cincinnati","ror":"https://ror.org/01e3m7079","country_code":"US","type":"education","lineage":["https://openalex.org/I63135867"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Wen Niu","raw_affiliation_strings":["Division of Biostatistics and Bioinformatics, Department of Environmental Health, University of Cincinnati , Cincinnati, OH 45267-0056, USA"],"affiliations":[{"raw_affiliation_string":"Division of Biostatistics and Bioinformatics, Department of Environmental Health, University of Cincinnati , Cincinnati, OH 45267-0056, USA","institution_ids":["https://openalex.org/I63135867"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070365550","display_name":"David R. Plas","orcid":"https://orcid.org/0000-0001-7568-1400"},"institutions":[{"id":"https://openalex.org/I92156820","display_name":"University of Cincinnati Medical Center","ror":"https://ror.org/02p72h367","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I92156820"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"David R Plas","raw_affiliation_strings":["Department of Cancer Biology, University of Cincinnati College of Medicine , Cincinnati, OH 45267-0521, USA"],"affiliations":[{"raw_affiliation_string":"Department of Cancer Biology, University of Cincinnati College of Medicine , Cincinnati, OH 45267-0521, USA","institution_ids":["https://openalex.org/I92156820"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5057856712","display_name":"Mario Medvedovic","orcid":"https://orcid.org/0000-0003-4510-3102"},"institutions":[{"id":"https://openalex.org/I63135867","display_name":"University of Cincinnati","ror":"https://ror.org/01e3m7079","country_code":"US","type":"education","lineage":["https://openalex.org/I63135867"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Mario Medvedovic","raw_affiliation_strings":["Division of Biostatistics and Bioinformatics, Department of Environmental Health, University of Cincinnati , Cincinnati, OH 45267-0056, USA"],"affiliations":[{"raw_affiliation_string":"Division of Biostatistics and Bioinformatics, Department of Environmental Health, University of Cincinnati , Cincinnati, OH 45267-0056, USA","institution_ids":["https://openalex.org/I63135867"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5057856712"],"corresponding_institution_ids":["https://openalex.org/I63135867"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.4971,"has_fulltext":false,"cited_by_count":6,"citation_normalized_percentile":{"value":0.62221216,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"36","issue":"18","first_page":"4781","last_page":"4788"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9995999932289124,"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":0.9995999932289124,"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":0.9955999851226807,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9947999715805054,"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/signal-transduction","display_name":"Signal transduction","score":0.6664513945579529},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6422271728515625},{"id":"https://openalex.org/keywords/pathway-analysis","display_name":"Pathway analysis","score":0.5897223353385925},{"id":"https://openalex.org/keywords/crosstalk","display_name":"Crosstalk","score":0.5543877482414246},{"id":"https://openalex.org/keywords/mechanism","display_name":"Mechanism (biology)","score":0.5301017761230469},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5037605166435242},{"id":"https://openalex.org/keywords/systems-biology","display_name":"Systems biology","score":0.4884416162967682},{"id":"https://openalex.org/keywords/mechanism-of-action","display_name":"Mechanism of action","score":0.4416019916534424},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.4281701147556305},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.36625853180885315},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.336259126663208},{"id":"https://openalex.org/keywords/cell-biology","display_name":"Cell biology","score":0.26664677262306213},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2484864592552185},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.19990083575248718}],"concepts":[{"id":"https://openalex.org/C62478195","wikidata":"https://www.wikidata.org/wiki/Q828130","display_name":"Signal transduction","level":2,"score":0.6664513945579529},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6422271728515625},{"id":"https://openalex.org/C2779230013","wikidata":"https://www.wikidata.org/wiki/Q25303877","display_name":"Pathway analysis","level":4,"score":0.5897223353385925},{"id":"https://openalex.org/C169822122","wikidata":"https://www.wikidata.org/wiki/Q230187","display_name":"Crosstalk","level":2,"score":0.5543877482414246},{"id":"https://openalex.org/C89611455","wikidata":"https://www.wikidata.org/wiki/Q6804646","display_name":"Mechanism (biology)","level":2,"score":0.5301017761230469},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5037605166435242},{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.4884416162967682},{"id":"https://openalex.org/C2776120743","wikidata":"https://www.wikidata.org/wiki/Q3271540","display_name":"Mechanism of action","level":3,"score":0.4416019916534424},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.4281701147556305},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.36625853180885315},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.336259126663208},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.26664677262306213},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2484864592552185},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.19990083575248718},{"id":"https://openalex.org/C120665830","wikidata":"https://www.wikidata.org/wiki/Q14620","display_name":"Optics","level":1,"score":0.0},{"id":"https://openalex.org/C202751555","wikidata":"https://www.wikidata.org/wiki/Q221681","display_name":"In vitro","level":2,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btaa590","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa590","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:32653926","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/32653926","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:7751003","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7751003","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:7751003","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7751003","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2777337649","display_name":null,"funder_award_id":"U54HL127624","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8862273786","display_name":null,"funder_award_id":"P30ES006096","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":57,"referenced_works":["https://openalex.org/W1522025508","https://openalex.org/W1774304772","https://openalex.org/W1982438274","https://openalex.org/W1988036808","https://openalex.org/W1997465096","https://openalex.org/W2000089305","https://openalex.org/W2030977583","https://openalex.org/W2032469875","https://openalex.org/W2058083379","https://openalex.org/W2058451329","https://openalex.org/W2071514232","https://openalex.org/W2076314388","https://openalex.org/W2078281362","https://openalex.org/W2084533385","https://openalex.org/W2088545291","https://openalex.org/W2096561460","https://openalex.org/W2100714130","https://openalex.org/W2100980426","https://openalex.org/W2107118079","https://openalex.org/W2108096229","https://openalex.org/W2108360575","https://openalex.org/W2109912704","https://openalex.org/W2110687686","https://openalex.org/W2113624587","https://openalex.org/W2119454933","https://openalex.org/W2122264952","https://openalex.org/W2127063807","https://openalex.org/W2133475958","https://openalex.org/W2150595264","https://openalex.org/W2162143298","https://openalex.org/W2234304375","https://openalex.org/W2277498598","https://openalex.org/W2312282875","https://openalex.org/W2492608700","https://openalex.org/W2502406077","https://openalex.org/W2520997716","https://openalex.org/W2559588208","https://openalex.org/W2566873385","https://openalex.org/W2568475068","https://openalex.org/W2593816418","https://openalex.org/W2612467560","https://openalex.org/W2616761213","https://openalex.org/W2624021832","https://openalex.org/W2734350874","https://openalex.org/W2791340464","https://openalex.org/W2899007325","https://openalex.org/W2935426292","https://openalex.org/W2952391626","https://openalex.org/W2963190765","https://openalex.org/W2969222701","https://openalex.org/W2982434722","https://openalex.org/W2986455832","https://openalex.org/W3004112716","https://openalex.org/W3101608900","https://openalex.org/W4211177544","https://openalex.org/W6604349625","https://openalex.org/W6769722058"],"related_works":["https://openalex.org/W1971820762","https://openalex.org/W2015096613","https://openalex.org/W2010009005","https://openalex.org/W4211148761","https://openalex.org/W178306964","https://openalex.org/W2140519688","https://openalex.org/W4220876657","https://openalex.org/W2549860619","https://openalex.org/W4206102614","https://openalex.org/W2114830914"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":2}],"updated_date":"2025-11-23T05:10:03.516525","created_date":"2025-10-10T00:00:00"}
