{"id":"https://openalex.org/W2322202967","doi":"https://doi.org/10.1093/bioinformatics/btw130","title":"Pathway analysis by randomization incorporating structure\u2014PARIS: an update","display_name":"Pathway analysis by randomization incorporating structure\u2014PARIS: an update","publication_year":2016,"publication_date":"2016-03-07","ids":{"openalex":"https://openalex.org/W2322202967","doi":"https://doi.org/10.1093/bioinformatics/btw130","mag":"2322202967","pmid":"https://pubmed.ncbi.nlm.nih.gov/27153576"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btw130","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw130","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/15/2361/49020326/bioinformatics_32_15_2361.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":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":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/32/15/2361/49020326/bioinformatics_32_15_2361.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5050450017","display_name":"Mariusz Butkiewicz","orcid":"https://orcid.org/0000-0003-2582-9336"},"institutions":[{"id":"https://openalex.org/I58956616","display_name":"Case Western Reserve University","ror":"https://ror.org/051fd9666","country_code":"US","type":"education","lineage":["https://openalex.org/I58956616"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mariusz Butkiewicz","raw_affiliation_strings":["1 Department of Epidemiology and Biostatistics, Case Western Reserve University, Cleveland, OH, USA","2 Institute for Computational Biology, Case Western Reserve University, Cleveland, OH, USA"],"affiliations":[{"raw_affiliation_string":"1 Department of Epidemiology and Biostatistics, Case Western Reserve University, Cleveland, OH, USA","institution_ids":["https://openalex.org/I58956616"]},{"raw_affiliation_string":"2 Institute for Computational Biology, Case Western Reserve University, Cleveland, OH, USA","institution_ids":["https://openalex.org/I58956616"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051524591","display_name":"Jessica N. Cooke Bailey","orcid":"https://orcid.org/0000-0002-4001-8702"},"institutions":[{"id":"https://openalex.org/I58956616","display_name":"Case Western Reserve University","ror":"https://ror.org/051fd9666","country_code":"US","type":"education","lineage":["https://openalex.org/I58956616"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Jessica N. Cooke Bailey","raw_affiliation_strings":["1 Department of Epidemiology and Biostatistics, Case Western Reserve University, Cleveland, OH, USA","2 Institute for Computational Biology, Case Western Reserve University, Cleveland, OH, USA"],"affiliations":[{"raw_affiliation_string":"1 Department of Epidemiology and Biostatistics, Case Western Reserve University, Cleveland, OH, USA","institution_ids":["https://openalex.org/I58956616"]},{"raw_affiliation_string":"2 Institute for Computational Biology, Case Western Reserve University, Cleveland, OH, USA","institution_ids":["https://openalex.org/I58956616"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080840152","display_name":"Alex Frase","orcid":null},"institutions":[{"id":"https://openalex.org/I54713919","display_name":"Geisinger Health System","ror":"https://ror.org/02qdbgx97","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I54713919"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alex Frase","raw_affiliation_strings":["3 Biomedical and Translational Informatics Program, Geisinger Health System, Danville, PA, USA"],"affiliations":[{"raw_affiliation_string":"3 Biomedical and Translational Informatics Program, Geisinger Health System, Danville, PA, USA","institution_ids":["https://openalex.org/I54713919"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052578174","display_name":"Scott Dudek","orcid":"https://orcid.org/0000-0003-2904-3824"},"institutions":[{"id":"https://openalex.org/I54713919","display_name":"Geisinger Health System","ror":"https://ror.org/02qdbgx97","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I54713919"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Scott Dudek","raw_affiliation_strings":["3 Biomedical and Translational Informatics Program, Geisinger Health System, Danville, PA, USA"],"affiliations":[{"raw_affiliation_string":"3 Biomedical and Translational Informatics Program, Geisinger Health System, Danville, PA, USA","institution_ids":["https://openalex.org/I54713919"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055928722","display_name":"Brian L. Yaspan","orcid":"https://orcid.org/0000-0002-3787-2510"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Brian L. Yaspan","raw_affiliation_strings":["4 Department of Human Genetics, Genentech, Inc, South San Francisco, CA, USA"],"affiliations":[{"raw_affiliation_string":"4 Department of Human Genetics, Genentech, Inc, South San Francisco, CA, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081769614","display_name":"Marylyn D. Ritchie","orcid":"https://orcid.org/0000-0002-1208-1720"},"institutions":[{"id":"https://openalex.org/I54713919","display_name":"Geisinger Health System","ror":"https://ror.org/02qdbgx97","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I54713919"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Marylyn D. Ritchie","raw_affiliation_strings":["3 Biomedical and Translational Informatics Program, Geisinger Health System, Danville, PA, USA"],"affiliations":[{"raw_affiliation_string":"3 Biomedical and Translational Informatics Program, Geisinger Health System, Danville, PA, USA","institution_ids":["https://openalex.org/I54713919"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091160220","display_name":"Sarah A. Pendergrass","orcid":"https://orcid.org/0000-0002-0565-6522"},"institutions":[{"id":"https://openalex.org/I54713919","display_name":"Geisinger Health System","ror":"https://ror.org/02qdbgx97","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I54713919"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sarah A. Pendergrass","raw_affiliation_strings":["3 Biomedical and Translational Informatics Program, Geisinger Health System, Danville, PA, USA"],"affiliations":[{"raw_affiliation_string":"3 Biomedical and Translational Informatics Program, Geisinger Health System, Danville, PA, USA","institution_ids":["https://openalex.org/I54713919"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5020266650","display_name":"Jonathan L. Haines","orcid":"https://orcid.org/0000-0002-4351-4728"},"institutions":[{"id":"https://openalex.org/I58956616","display_name":"Case Western Reserve University","ror":"https://ror.org/051fd9666","country_code":"US","type":"education","lineage":["https://openalex.org/I58956616"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jonathan L. Haines","raw_affiliation_strings":["1 Department of Epidemiology and Biostatistics, Case Western Reserve University, Cleveland, OH, USA","2 Institute for Computational Biology, Case Western Reserve University, Cleveland, OH, USA"],"affiliations":[{"raw_affiliation_string":"1 Department of Epidemiology and Biostatistics, Case Western Reserve University, Cleveland, OH, USA","institution_ids":["https://openalex.org/I58956616"]},{"raw_affiliation_string":"2 Institute for Computational Biology, Case Western Reserve University, Cleveland, OH, USA","institution_ids":["https://openalex.org/I58956616"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5051524591"],"corresponding_institution_ids":["https://openalex.org/I58956616"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":2.0086,"has_fulltext":true,"cited_by_count":10,"citation_normalized_percentile":{"value":0.8738819,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"32","issue":"15","first_page":"2361","last_page":"2363"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10261","display_name":"Genetic Associations and Epidemiology","score":0.9994000196456909,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T10261","display_name":"Genetic Associations and Epidemiology","score":0.9994000196456909,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9980999827384949,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9884999990463257,"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/computer-science","display_name":"Computer science","score":0.6867546439170837},{"id":"https://openalex.org/keywords/pathway-analysis","display_name":"Pathway analysis","score":0.6539664268493652},{"id":"https://openalex.org/keywords/permutation","display_name":"Permutation (music)","score":0.6265745759010315},{"id":"https://openalex.org/keywords/flexibility","display_name":"Flexibility (engineering)","score":0.5348238945007324},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.48335000872612},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.45523953437805176},{"id":"https://openalex.org/keywords/resampling","display_name":"Resampling","score":0.44384971261024475},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.34793621301651},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.22799226641654968},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.19692662358283997},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.14157599210739136},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.13908010721206665},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.07741856575012207}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6867546439170837},{"id":"https://openalex.org/C2779230013","wikidata":"https://www.wikidata.org/wiki/Q25303877","display_name":"Pathway analysis","level":4,"score":0.6539664268493652},{"id":"https://openalex.org/C21308566","wikidata":"https://www.wikidata.org/wiki/Q7169365","display_name":"Permutation (music)","level":2,"score":0.6265745759010315},{"id":"https://openalex.org/C2780598303","wikidata":"https://www.wikidata.org/wiki/Q65921492","display_name":"Flexibility (engineering)","level":2,"score":0.5348238945007324},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.48335000872612},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.45523953437805176},{"id":"https://openalex.org/C150921843","wikidata":"https://www.wikidata.org/wiki/Q1170431","display_name":"Resampling","level":2,"score":0.44384971261024475},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.34793621301651},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.22799226641654968},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.19692662358283997},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.14157599210739136},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.13908010721206665},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.07741856575012207},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","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/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"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":false},{"descriptor_ui":"D012984","descriptor_name":"Software","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":false},{"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":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055106","descriptor_name":"Genome-Wide Association Study","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055106","descriptor_name":"Genome-Wide Association Study","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055106","descriptor_name":"Genome-Wide Association Study","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":5,"locations":[{"id":"doi:10.1093/bioinformatics/btw130","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw130","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/15/2361/49020326/bioinformatics_32_15_2361.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:27153576","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27153576","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:europepmc.org:4374848","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4965631","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:open-archive.highwire.org:bioinfo:32/15/2361","is_oa":false,"landing_page_url":"http://bioinformatics.oxfordjournals.org/cgi/content/short/32/15/2361","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"TEXT"},{"id":"pmh:oai:pubmedcentral.nih.gov:4965631","is_oa":true,"landing_page_url":"http://doi.org/10.1093/bioinformatics/btw130","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":"","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btw130","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw130","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/15/2361/49020326/bioinformatics_32_15_2361.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337350","display_name":"National Eye Institute","ror":"https://ror.org/03wkg3b53"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2322202967.pdf","grobid_xml":"https://content.openalex.org/works/W2322202967.grobid-xml"},"referenced_works_count":7,"referenced_works":["https://openalex.org/W1839028418","https://openalex.org/W1980991473","https://openalex.org/W2031397012","https://openalex.org/W2061404823","https://openalex.org/W2151459533","https://openalex.org/W2161432863","https://openalex.org/W6638587655"],"related_works":["https://openalex.org/W2021333301","https://openalex.org/W4246719347","https://openalex.org/W2006114390","https://openalex.org/W2077508419","https://openalex.org/W2380800094","https://openalex.org/W2055801436","https://openalex.org/W4385400511","https://openalex.org/W2162206208","https://openalex.org/W2974571879","https://openalex.org/W2507906577"],"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":2},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":2},{"year":2016,"cited_by_count":2}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
