{"id":"https://openalex.org/W2149728171","doi":"https://doi.org/10.1093/nar/gkp354","title":"BioBIKE: A Web-based, programmable, integrated biological knowledge base","display_name":"BioBIKE: A Web-based, programmable, integrated biological knowledge base","publication_year":2009,"publication_date":"2009-05-11","ids":{"openalex":"https://openalex.org/W2149728171","doi":"https://doi.org/10.1093/nar/gkp354","mag":"2149728171","pmid":"https://pubmed.ncbi.nlm.nih.gov/19433511"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkp354","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkp354","pdf_url":"https://academic.oup.com/nar/article-pdf/37/suppl_2/W28/16758379/gkp354.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/nar/article-pdf/37/suppl_2/W28/16758379/gkp354.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5085075626","display_name":"Jeff Elhai","orcid":"https://orcid.org/0000-0003-0424-9236"},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]},{"id":"https://openalex.org/I184840846","display_name":"Virginia Commonwealth University","ror":"https://ror.org/02nkdxk79","country_code":"US","type":"education","lineage":["https://openalex.org/I184840846"]},{"id":"https://openalex.org/I4210151112","display_name":"Sequoia (United States)","ror":"https://ror.org/05y5sz883","country_code":"US","type":"company","lineage":["https://openalex.org/I4210151112"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jeff Elhai","raw_affiliation_strings":["Center for the Study of Biological Complexity, Virginia Commonwealth University, Richmond VA, USA","Center for the Study of Biological Complexity, Virginia Commonwealth University, Richmond VA,2Berkeley CA, USA,3Sequoia Consulting, North Hills,4CollabRx, Inc., Palo Alto and 5Symbolic Systems Program (consulting), Stanford University, Stanford, CA, USA"],"affiliations":[{"raw_affiliation_string":"Center for the Study of Biological Complexity, Virginia Commonwealth University, Richmond VA, USA","institution_ids":[]},{"raw_affiliation_string":"Center for the Study of Biological Complexity, Virginia Commonwealth University, Richmond VA,2Berkeley CA, USA,3Sequoia Consulting, North Hills,4CollabRx, Inc., Palo Alto and 5Symbolic Systems Program (consulting), Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I184840846","https://openalex.org/I97018004","https://openalex.org/I4210151112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005905973","display_name":"Arnaud Taton","orcid":"https://orcid.org/0000-0001-5494-5964"},"institutions":[{"id":"https://openalex.org/I4210151112","display_name":"Sequoia (United States)","ror":"https://ror.org/05y5sz883","country_code":"US","type":"company","lineage":["https://openalex.org/I4210151112"]},{"id":"https://openalex.org/I184840846","display_name":"Virginia Commonwealth University","ror":"https://ror.org/02nkdxk79","country_code":"US","type":"education","lineage":["https://openalex.org/I184840846"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Arnaud Taton","raw_affiliation_strings":["Center for the Study of Biological Complexity, Virginia Commonwealth University, Richmond VA,2Berkeley CA, USA,3Sequoia Consulting, North Hills,4CollabRx, Inc., Palo Alto and 5Symbolic Systems Program (consulting), Stanford University, Stanford, CA, USA"],"affiliations":[{"raw_affiliation_string":"Center for the Study of Biological Complexity, Virginia Commonwealth University, Richmond VA,2Berkeley CA, USA,3Sequoia Consulting, North Hills,4CollabRx, Inc., Palo Alto and 5Symbolic Systems Program (consulting), Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I184840846","https://openalex.org/I97018004","https://openalex.org/I4210151112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110254188","display_name":"J. P. Massar","orcid":null},"institutions":[{"id":"https://openalex.org/I184840846","display_name":"Virginia Commonwealth University","ror":"https://ror.org/02nkdxk79","country_code":"US","type":"education","lineage":["https://openalex.org/I184840846"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]},{"id":"https://openalex.org/I4210151112","display_name":"Sequoia (United States)","ror":"https://ror.org/05y5sz883","country_code":"US","type":"company","lineage":["https://openalex.org/I4210151112"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"JP Massar","raw_affiliation_strings":["Center for the Study of Biological Complexity, Virginia Commonwealth University, Richmond VA,2Berkeley CA, USA,3Sequoia Consulting, North Hills,4CollabRx, Inc., Palo Alto and 5Symbolic Systems Program (consulting), Stanford University, Stanford, CA, USA"],"affiliations":[{"raw_affiliation_string":"Center for the Study of Biological Complexity, Virginia Commonwealth University, Richmond VA,2Berkeley CA, USA,3Sequoia Consulting, North Hills,4CollabRx, Inc., Palo Alto and 5Symbolic Systems Program (consulting), Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I184840846","https://openalex.org/I97018004","https://openalex.org/I4210151112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070011971","display_name":"John K. Myers","orcid":null},"institutions":[{"id":"https://openalex.org/I4210151112","display_name":"Sequoia (United States)","ror":"https://ror.org/05y5sz883","country_code":"US","type":"company","lineage":["https://openalex.org/I4210151112"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]},{"id":"https://openalex.org/I184840846","display_name":"Virginia Commonwealth University","ror":"https://ror.org/02nkdxk79","country_code":"US","type":"education","lineage":["https://openalex.org/I184840846"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"John K. Myers","raw_affiliation_strings":["Center for the Study of Biological Complexity, Virginia Commonwealth University, Richmond VA,2Berkeley CA, USA,3Sequoia Consulting, North Hills,4CollabRx, Inc., Palo Alto and 5Symbolic Systems Program (consulting), Stanford University, Stanford, CA, USA"],"affiliations":[{"raw_affiliation_string":"Center for the Study of Biological Complexity, Virginia Commonwealth University, Richmond VA,2Berkeley CA, USA,3Sequoia Consulting, North Hills,4CollabRx, Inc., Palo Alto and 5Symbolic Systems Program (consulting), Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I184840846","https://openalex.org/I97018004","https://openalex.org/I4210151112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110573079","display_name":"Mike Travers","orcid":null},"institutions":[{"id":"https://openalex.org/I4210151112","display_name":"Sequoia (United States)","ror":"https://ror.org/05y5sz883","country_code":"US","type":"company","lineage":["https://openalex.org/I4210151112"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]},{"id":"https://openalex.org/I184840846","display_name":"Virginia Commonwealth University","ror":"https://ror.org/02nkdxk79","country_code":"US","type":"education","lineage":["https://openalex.org/I184840846"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mike Travers","raw_affiliation_strings":["Center for the Study of Biological Complexity, Virginia Commonwealth University, Richmond VA,2Berkeley CA, USA,3Sequoia Consulting, North Hills,4CollabRx, Inc., Palo Alto and 5Symbolic Systems Program (consulting), Stanford University, Stanford, CA, USA"],"affiliations":[{"raw_affiliation_string":"Center for the Study of Biological Complexity, Virginia Commonwealth University, Richmond VA,2Berkeley CA, USA,3Sequoia Consulting, North Hills,4CollabRx, Inc., Palo Alto and 5Symbolic Systems Program (consulting), Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I184840846","https://openalex.org/I97018004","https://openalex.org/I4210151112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000335924","display_name":"Johnny Casey","orcid":null},"institutions":[{"id":"https://openalex.org/I184840846","display_name":"Virginia Commonwealth University","ror":"https://ror.org/02nkdxk79","country_code":"US","type":"education","lineage":["https://openalex.org/I184840846"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]},{"id":"https://openalex.org/I4210151112","display_name":"Sequoia (United States)","ror":"https://ror.org/05y5sz883","country_code":"US","type":"company","lineage":["https://openalex.org/I4210151112"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Johnny Casey","raw_affiliation_strings":["Center for the Study of Biological Complexity, Virginia Commonwealth University, Richmond VA,2Berkeley CA, USA,3Sequoia Consulting, North Hills,4CollabRx, Inc., Palo Alto and 5Symbolic Systems Program (consulting), Stanford University, Stanford, CA, USA"],"affiliations":[{"raw_affiliation_string":"Center for the Study of Biological Complexity, Virginia Commonwealth University, Richmond VA,2Berkeley CA, USA,3Sequoia Consulting, North Hills,4CollabRx, Inc., Palo Alto and 5Symbolic Systems Program (consulting), Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I184840846","https://openalex.org/I97018004","https://openalex.org/I4210151112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052247662","display_name":"Mark Slupesky","orcid":null},"institutions":[{"id":"https://openalex.org/I184840846","display_name":"Virginia Commonwealth University","ror":"https://ror.org/02nkdxk79","country_code":"US","type":"education","lineage":["https://openalex.org/I184840846"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]},{"id":"https://openalex.org/I4210151112","display_name":"Sequoia (United States)","ror":"https://ror.org/05y5sz883","country_code":"US","type":"company","lineage":["https://openalex.org/I4210151112"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mark Slupesky","raw_affiliation_strings":["Center for the Study of Biological Complexity, Virginia Commonwealth University, Richmond VA,2Berkeley CA, USA,3Sequoia Consulting, North Hills,4CollabRx, Inc., Palo Alto and 5Symbolic Systems Program (consulting), Stanford University, Stanford, CA, USA"],"affiliations":[{"raw_affiliation_string":"Center for the Study of Biological Complexity, Virginia Commonwealth University, Richmond VA,2Berkeley CA, USA,3Sequoia Consulting, North Hills,4CollabRx, Inc., Palo Alto and 5Symbolic Systems Program (consulting), Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I184840846","https://openalex.org/I97018004","https://openalex.org/I4210151112"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5037249015","display_name":"Jeff Shrager","orcid":"https://orcid.org/0000-0002-7007-6305"},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]},{"id":"https://openalex.org/I4210151112","display_name":"Sequoia (United States)","ror":"https://ror.org/05y5sz883","country_code":"US","type":"company","lineage":["https://openalex.org/I4210151112"]},{"id":"https://openalex.org/I184840846","display_name":"Virginia Commonwealth University","ror":"https://ror.org/02nkdxk79","country_code":"US","type":"education","lineage":["https://openalex.org/I184840846"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Jeff Shrager","raw_affiliation_strings":["Center for the Study of Biological Complexity, Virginia Commonwealth University, Richmond VA,2Berkeley CA, USA,3Sequoia Consulting, North Hills,4CollabRx, Inc., Palo Alto and 5Symbolic Systems Program (consulting), Stanford University, Stanford, CA, USA"],"affiliations":[{"raw_affiliation_string":"Center for the Study of Biological Complexity, Virginia Commonwealth University, Richmond VA,2Berkeley CA, USA,3Sequoia Consulting, North Hills,4CollabRx, Inc., Palo Alto and 5Symbolic Systems Program (consulting), Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I184840846","https://openalex.org/I97018004","https://openalex.org/I4210151112"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5037249015"],"corresponding_institution_ids":["https://openalex.org/I184840846","https://openalex.org/I4210151112","https://openalex.org/I97018004"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":2.6246,"has_fulltext":false,"cited_by_count":47,"citation_normalized_percentile":{"value":0.90170139,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"37","issue":"suppl_2","first_page":"W28","last_page":"W32"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.996999979019165,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.996999979019165,"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/T11986","display_name":"Scientific Computing and Data Management","score":0.9872000217437744,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9864000082015991,"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":0.6935989856719971},{"id":"https://openalex.org/keywords/interface","display_name":"Interface (matter)","score":0.6873428821563721},{"id":"https://openalex.org/keywords/graphical-user-interface","display_name":"Graphical user interface","score":0.6786670684814453},{"id":"https://openalex.org/keywords/knowledge-base","display_name":"Knowledge base","score":0.5791605710983276},{"id":"https://openalex.org/keywords/user-interface","display_name":"User interface","score":0.544035017490387},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.5334278345108032},{"id":"https://openalex.org/keywords/application-programming-interface","display_name":"Application programming interface","score":0.5105270147323608},{"id":"https://openalex.org/keywords/extensibility","display_name":"Extensibility","score":0.4645305573940277},{"id":"https://openalex.org/keywords/human\u2013computer-interaction","display_name":"Human\u2013computer interaction","score":0.44324642419815063},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.3860780894756317},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.37592482566833496}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6935989856719971},{"id":"https://openalex.org/C113843644","wikidata":"https://www.wikidata.org/wiki/Q901882","display_name":"Interface (matter)","level":4,"score":0.6873428821563721},{"id":"https://openalex.org/C37789001","wikidata":"https://www.wikidata.org/wiki/Q782543","display_name":"Graphical user interface","level":2,"score":0.6786670684814453},{"id":"https://openalex.org/C4554734","wikidata":"https://www.wikidata.org/wiki/Q593744","display_name":"Knowledge base","level":2,"score":0.5791605710983276},{"id":"https://openalex.org/C89505385","wikidata":"https://www.wikidata.org/wiki/Q47146","display_name":"User interface","level":2,"score":0.544035017490387},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.5334278345108032},{"id":"https://openalex.org/C99613125","wikidata":"https://www.wikidata.org/wiki/Q165194","display_name":"Application programming interface","level":2,"score":0.5105270147323608},{"id":"https://openalex.org/C32833848","wikidata":"https://www.wikidata.org/wiki/Q4115054","display_name":"Extensibility","level":2,"score":0.4645305573940277},{"id":"https://openalex.org/C107457646","wikidata":"https://www.wikidata.org/wiki/Q207434","display_name":"Human\u2013computer interaction","level":1,"score":0.44324642419815063},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.3860780894756317},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.37592482566833496},{"id":"https://openalex.org/C129307140","wikidata":"https://www.wikidata.org/wiki/Q6795880","display_name":"Maximum bubble pressure method","level":3,"score":0.0},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.0},{"id":"https://openalex.org/C157915830","wikidata":"https://www.wikidata.org/wiki/Q2928001","display_name":"Bubble","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D001695","descriptor_name":"Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001695","descriptor_name":"Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001695","descriptor_name":"Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"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":"D018511","descriptor_name":"Systems Integration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018511","descriptor_name":"Systems Integration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018511","descriptor_name":"Systems Integration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/nar/gkp354","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkp354","pdf_url":"https://academic.oup.com/nar/article-pdf/37/suppl_2/W28/16758379/gkp354.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:19433511","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19433511","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:2703918","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2703918","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":"Nucleic Acids Res","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gkp354","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkp354","pdf_url":"https://academic.oup.com/nar/article-pdf/37/suppl_2/W28/16758379/gkp354.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2149728171.pdf","grobid_xml":"https://content.openalex.org/works/W2149728171.grobid-xml"},"referenced_works_count":22,"referenced_works":["https://openalex.org/W1969761972","https://openalex.org/W2045924603","https://openalex.org/W2064189581","https://openalex.org/W2074091533","https://openalex.org/W2090385974","https://openalex.org/W2106882534","https://openalex.org/W2107580398","https://openalex.org/W2137653635","https://openalex.org/W2138107070","https://openalex.org/W2140302584","https://openalex.org/W2145091349","https://openalex.org/W2146341019","https://openalex.org/W2148047088","https://openalex.org/W2150934173","https://openalex.org/W2158714788","https://openalex.org/W2165674132","https://openalex.org/W2166325883","https://openalex.org/W3189912187","https://openalex.org/W3199943451","https://openalex.org/W4229880569","https://openalex.org/W4254036624","https://openalex.org/W4320800138"],"related_works":["https://openalex.org/W2048180534","https://openalex.org/W3180179400","https://openalex.org/W2118366689","https://openalex.org/W2154998455","https://openalex.org/W2116888309","https://openalex.org/W2477652530","https://openalex.org/W2039055059","https://openalex.org/W2381088774","https://openalex.org/W963721989","https://openalex.org/W1547777009"],"abstract_inverted_index":{"BioBIKE":[0,32,58,74,147,176],"(biobike.csbc.vcu.edu)":[1],"is":[2,33,139,177,195],"a":[3,39,43,69,135,149],"web-based":[4],"environment":[5],"enabling":[6],"biologists":[7],"with":[8,161,172],"little":[9],"programming":[10,45,75,79,166],"expertise":[11],"to":[12,68,84,91,109,117,122,152,158,167],"combine":[13,87],"tools,":[14,99,130],"data,":[15],"and":[16,20,47,77,89,103,116,170,191],"knowledge":[17,41],"in":[18,164],"novel":[19],"possibly":[21],"complex":[22,132],"ways,":[23],"as":[24,101],"demanded":[25],"by":[26],"the":[27,55,113,144,153,180,188],"biological":[28,40,174],"problem":[29],"at":[30,197],"hand.":[31],"composed":[34],"of":[35,51,54,156,187],"three":[36],"integrated":[37],"components:":[38],"base,":[42],"graphical":[44,78,145],"interface":[46,80,115],"an":[48],"extensible":[49],"set":[50],"tools.":[52],"Each":[53],"five":[56],"current":[57],"instances":[59],"provides":[60],"all":[61],"available":[62,196],"information":[63,90],"(genomic,":[64],"metabolic,":[65],"experimental)":[66],"appropriate":[67],"given":[70],"research":[71],"community.":[72],"The":[73],"language":[76,190],"employ":[81],"familiar":[82],"operations":[83],"help":[85],"users":[86,108],"functions":[88],"conduct":[92],"biologically":[93],"meaningful":[94],"analyses.":[95],"Many":[96],"commonly":[97],"used":[98],"such":[100],"Blast":[102],"PHYLIP,":[104],"are":[105],"built-in,":[106],"allowing":[107],"access":[110],"them":[111],"within":[112],"same":[114],"pass":[118],"results":[119],"from":[120],"one":[121],"another.":[123],"Users":[124],"may":[125],"also":[126],"invent":[127],"their":[128],"own":[129],"packaging":[131],"expressions":[133],"under":[134,179],"single":[136],"name,":[137],"which":[138],"immediately":[140],"made":[141],"accessible":[142],"through":[143],"interface.":[146],"represents":[148],"partial":[150],"solution":[151],"difficult":[154],"question":[155],"how":[157],"enable":[159],"those":[160],"no":[162],"background":[163],"computer":[165],"work":[168],"directly":[169],"creatively":[171],"mass":[173],"information.":[175],"distributed":[178],"MIT":[181],"Open":[182],"Source":[183],"license.":[184],"A":[185],"description":[186],"underlying":[189],"other":[192],"technical":[193],"matters":[194],"www.Biobike.org.":[198]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":5},{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":7},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":5}],"updated_date":"2026-01-13T01:12:25.745995","created_date":"2025-10-10T00:00:00"}
