{"id":"https://openalex.org/W2053935824","doi":"https://doi.org/10.1093/bioinformatics/btq282","title":"geWorkbench: an open source platform for integrative genomics","display_name":"geWorkbench: an open source platform for integrative genomics","publication_year":2010,"publication_date":"2010-05-28","ids":{"openalex":"https://openalex.org/W2053935824","doi":"https://doi.org/10.1093/bioinformatics/btq282","mag":"2053935824","pmid":"https://pubmed.ncbi.nlm.nih.gov/20511363"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btq282","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq282","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/26/14/1779/48851874/bioinformatics_26_14_1779.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/26/14/1779/48851874/bioinformatics_26_14_1779.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5038314925","display_name":"Aris Floratos","orcid":"https://orcid.org/0000-0002-9290-7931"},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Aris Floratos","raw_affiliation_strings":["1 Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, NY 10032 and 2 Department of Electrical Engineering, Columbia University, 500 West 120th Street, New York, NY 10027, USA"],"affiliations":[{"raw_affiliation_string":"1 Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, NY 10032 and 2 Department of Electrical Engineering, Columbia University, 500 West 120th Street, New York, NY 10027, USA","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102812506","display_name":"Kenneth Smith","orcid":"https://orcid.org/0000-0002-9677-2202"},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kenneth Smith","raw_affiliation_strings":["1 Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, NY 10032 and 2 Department of Electrical Engineering, Columbia University, 500 West 120th Street, New York, NY 10027, USA"],"affiliations":[{"raw_affiliation_string":"1 Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, NY 10032 and 2 Department of Electrical Engineering, Columbia University, 500 West 120th Street, New York, NY 10027, USA","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074626930","display_name":"Ji Zhou","orcid":"https://orcid.org/0000-0003-2771-6028"},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Zhou Ji","raw_affiliation_strings":["1 Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, NY 10032 and 2 Department of Electrical Engineering, Columbia University, 500 West 120th Street, New York, NY 10027, USA"],"affiliations":[{"raw_affiliation_string":"1 Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, NY 10032 and 2 Department of Electrical Engineering, Columbia University, 500 West 120th Street, New York, NY 10027, USA","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110713844","display_name":"John Watkinson","orcid":null},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"John Watkinson","raw_affiliation_strings":["1 Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, NY 10032 and 2 Department of Electrical Engineering, Columbia University, 500 West 120th Street, New York, NY 10027, USA"],"affiliations":[{"raw_affiliation_string":"1 Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, NY 10032 and 2 Department of Electrical Engineering, Columbia University, 500 West 120th Street, New York, NY 10027, USA","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5046245448","display_name":"Andrea Califano","orcid":"https://orcid.org/0000-0003-4742-3679"},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Andrea Califano","raw_affiliation_strings":["1 Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, NY 10032 and 2 Department of Electrical Engineering, Columbia University, 500 West 120th Street, New York, NY 10027, USA"],"affiliations":[{"raw_affiliation_string":"1 Center for Computational Biology and Bioinformatics, Columbia University, 1130 St. Nicholas Ave, New York, NY 10032 and 2 Department of Electrical Engineering, Columbia University, 500 West 120th Street, New York, NY 10027, USA","institution_ids":["https://openalex.org/I78577930"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5038314925"],"corresponding_institution_ids":["https://openalex.org/I78577930"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":3.3885,"has_fulltext":false,"cited_by_count":90,"citation_normalized_percentile":{"value":0.92768458,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":91,"max":99},"biblio":{"volume":"26","issue":"14","first_page":"1779","last_page":"1780"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9993000030517578,"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":0.9993000030517578,"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":0.995199978351593,"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":0.9941999912261963,"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":0.7576086521148682},{"id":"https://openalex.org/keywords/workbench","display_name":"Workbench","score":0.6428792476654053},{"id":"https://openalex.org/keywords/plug-in","display_name":"Plug-in","score":0.6215862035751343},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.5802909731864929},{"id":"https://openalex.org/keywords/java","display_name":"Java","score":0.5798207521438599},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.5796118974685669},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.5306830406188965},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.49656444787979126},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.47086799144744873},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.46136870980262756},{"id":"https://openalex.org/keywords/server","display_name":"Server","score":0.46066394448280334},{"id":"https://openalex.org/keywords/suite","display_name":"Suite","score":0.449527382850647},{"id":"https://openalex.org/keywords/software-suite","display_name":"Software suite","score":0.4430042803287506},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.4301793873310089},{"id":"https://openalex.org/keywords/middleware","display_name":"Middleware (distributed applications)","score":0.4153681993484497},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.2758614420890808},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.25443097949028015},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.21375501155853271},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.18913084268569946}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7576086521148682},{"id":"https://openalex.org/C2779145975","wikidata":"https://www.wikidata.org/wiki/Q347690","display_name":"Workbench","level":3,"score":0.6428792476654053},{"id":"https://openalex.org/C4924752","wikidata":"https://www.wikidata.org/wiki/Q184148","display_name":"Plug-in","level":2,"score":0.6215862035751343},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.5802909731864929},{"id":"https://openalex.org/C548217200","wikidata":"https://www.wikidata.org/wiki/Q251","display_name":"Java","level":2,"score":0.5798207521438599},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.5796118974685669},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.5306830406188965},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.49656444787979126},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.47086799144744873},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.46136870980262756},{"id":"https://openalex.org/C93996380","wikidata":"https://www.wikidata.org/wiki/Q44127","display_name":"Server","level":2,"score":0.46066394448280334},{"id":"https://openalex.org/C79581498","wikidata":"https://www.wikidata.org/wiki/Q1367530","display_name":"Suite","level":2,"score":0.449527382850647},{"id":"https://openalex.org/C2778736646","wikidata":"https://www.wikidata.org/wiki/Q1143070","display_name":"Software suite","level":3,"score":0.4430042803287506},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.4301793873310089},{"id":"https://openalex.org/C169468491","wikidata":"https://www.wikidata.org/wiki/Q146923","display_name":"Middleware (distributed applications)","level":2,"score":0.4153681993484497},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.2758614420890808},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.25443097949028015},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.21375501155853271},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.18913084268569946},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.0},{"id":"https://openalex.org/C95457728","wikidata":"https://www.wikidata.org/wiki/Q309","display_name":"History","level":0,"score":0.0},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0},{"id":"https://openalex.org/C166957645","wikidata":"https://www.wikidata.org/wiki/Q23498","display_name":"Archaeology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","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":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btq282","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq282","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/26/14/1779/48851874/bioinformatics_26_14_1779.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:20511363","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20511363","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:2894520","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2894520","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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.909.299","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.909.299","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://bioinformatics.oxfordjournals.org/content/early/2010/05/28/bioinformatics.btq282.full.pdf","raw_type":"text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btq282","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq282","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/26/14/1779/48851874/bioinformatics_26_14_1779.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":[{"score":0.6100000143051147,"id":"https://metadata.un.org/sdg/9","display_name":"Industry, innovation and infrastructure"}],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2053935824.pdf","grobid_xml":"https://content.openalex.org/works/W2053935824.grobid-xml"},"referenced_works_count":10,"referenced_works":["https://openalex.org/W45534775","https://openalex.org/W1977859620","https://openalex.org/W1996394717","https://openalex.org/W2104898129","https://openalex.org/W2107523227","https://openalex.org/W2116211027","https://openalex.org/W2124556845","https://openalex.org/W2140728823","https://openalex.org/W2142117674","https://openalex.org/W2159675211"],"related_works":["https://openalex.org/W2388509490","https://openalex.org/W2109648960","https://openalex.org/W2166015079","https://openalex.org/W2050384624","https://openalex.org/W2776888796","https://openalex.org/W2388480422","https://openalex.org/W3195605572","https://openalex.org/W3118682726","https://openalex.org/W2893042097","https://openalex.org/W2120301307"],"abstract_inverted_index":{"The":[0],"project":[1],"site":[2],"(http://www.geworkbench.org)":[3],"includes":[4],"links":[5],"to":[6],"self-extracting":[7],"installers":[8],"for":[9,19],"most":[10],"operating":[11],"system":[12],"(OS)":[13],"platforms":[14],"as":[15,17],"well":[16],"instructions":[18],"building":[20],"the":[21,26,34,44,50],"application":[22],"from":[23,33],"scratch":[24],"using":[25],"source":[27],"code":[28],"[which":[29],"is":[30,41],"freely":[31],"available":[32,42],"project's":[35],"SVN":[36],"(subversion)":[37],"repository].":[38],"geWorkbench":[39],"support":[40],"through":[43],"end-user":[45],"and":[46],"developer":[47],"forums":[48],"of":[49],"caBIG":[51],"Molecular":[52],"Analysis":[53],"Tools":[54],"Knowledge":[55],"Center,":[56],"https://cabig-kc.nci.nih.gov/Molecular/forums/":[57]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":8},{"year":2020,"cited_by_count":6},{"year":2019,"cited_by_count":7},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":5},{"year":2016,"cited_by_count":9},{"year":2015,"cited_by_count":9},{"year":2014,"cited_by_count":10},{"year":2013,"cited_by_count":7},{"year":2012,"cited_by_count":9}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
