{"id":"https://openalex.org/W2002506464","doi":"https://doi.org/10.1186/1471-2105-11-220","title":"Integration of open access literature into the RCSB Protein Data Bank using BioLit","display_name":"Integration of open access literature into the RCSB Protein Data Bank using BioLit","publication_year":2010,"publication_date":"2010-04-29","ids":{"openalex":"https://openalex.org/W2002506464","doi":"https://doi.org/10.1186/1471-2105-11-220","mag":"2002506464","pmid":"https://pubmed.ncbi.nlm.nih.gov/20429930"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-11-220","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-11-220","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-11-220","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-11-220","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5077634829","display_name":"Andreas Prli\u0107","orcid":"https://orcid.org/0000-0001-6346-6391"},"institutions":[{"id":"https://openalex.org/I181653535","display_name":"San Diego Supercomputer Center","ror":"https://ror.org/04mg3nk07","country_code":"US","type":"facility","lineage":["https://openalex.org/I181653535","https://openalex.org/I36258959"]},{"id":"https://openalex.org/I36258959","display_name":"University of California San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Andreas Prli\u0107","raw_affiliation_strings":["San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0505 La Jolla, CA 92093-0505, USA. andreas.prlic@gmail.com","San Diego Supercomputer Center, University of California - San Diego, La Jolla, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0505 La Jolla, CA 92093-0505, USA. andreas.prlic@gmail.com","institution_ids":["https://openalex.org/I181653535","https://openalex.org/I36258959"]},{"raw_affiliation_string":"San Diego Supercomputer Center, University of California - San Diego, La Jolla, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5064086025","display_name":"Marco A Martinez","orcid":null},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]},{"id":"https://openalex.org/I6750721","display_name":"University of Montana","ror":"https://ror.org/0078xmk34","country_code":"US","type":"education","lineage":["https://openalex.org/I6750721"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Marco A Martinez","raw_affiliation_strings":["Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, 9500 Gilman Drive, Mailcode 0743, La Jolla, CA, 92093-0743, USA","Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California, San Diego, La Jolla, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, 9500 Gilman Drive, Mailcode 0743, La Jolla, CA, 92093-0743, USA","institution_ids":["https://openalex.org/I6750721","https://openalex.org/I36258959"]},{"raw_affiliation_string":"Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California, San Diego, La Jolla, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074348793","display_name":"Dimitris Dimitropoulos","orcid":null},"institutions":[{"id":"https://openalex.org/I181653535","display_name":"San Diego Supercomputer Center","ror":"https://ror.org/04mg3nk07","country_code":"US","type":"facility","lineage":["https://openalex.org/I181653535","https://openalex.org/I36258959"]},{"id":"https://openalex.org/I36258959","display_name":"University of California San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Dimitris Dimitropoulos","raw_affiliation_strings":["San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0505, La Jolla, CA, 92093-0505, USA","San Diego Supercomputer Center, University of California - San Diego, La Jolla, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0505, La Jolla, CA, 92093-0505, USA","institution_ids":["https://openalex.org/I181653535","https://openalex.org/I36258959"]},{"raw_affiliation_string":"San Diego Supercomputer Center, University of California - San Diego, La Jolla, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033691629","display_name":"Bojan Beran","orcid":null},"institutions":[{"id":"https://openalex.org/I181653535","display_name":"San Diego Supercomputer Center","ror":"https://ror.org/04mg3nk07","country_code":"US","type":"facility","lineage":["https://openalex.org/I181653535","https://openalex.org/I36258959"]},{"id":"https://openalex.org/I36258959","display_name":"University of California San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Bojan Beran","raw_affiliation_strings":["San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0505, La Jolla, CA, 92093-0505, USA","San Diego Supercomputer Center, University of California - San Diego, La Jolla, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0505, La Jolla, CA, 92093-0505, USA","institution_ids":["https://openalex.org/I181653535","https://openalex.org/I36258959"]},{"raw_affiliation_string":"San Diego Supercomputer Center, University of California - San Diego, La Jolla, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004505377","display_name":"Benjamin T. Yukich","orcid":null},"institutions":[{"id":"https://openalex.org/I181653535","display_name":"San Diego Supercomputer Center","ror":"https://ror.org/04mg3nk07","country_code":"US","type":"facility","lineage":["https://openalex.org/I181653535","https://openalex.org/I36258959"]},{"id":"https://openalex.org/I36258959","display_name":"University of California San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Benjamin T Yukich","raw_affiliation_strings":["San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0505, La Jolla, CA, 92093-0505, USA","San Diego Supercomputer Center, University of California - San Diego, La Jolla, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0505, La Jolla, CA, 92093-0505, USA","institution_ids":["https://openalex.org/I181653535","https://openalex.org/I36258959"]},{"raw_affiliation_string":"San Diego Supercomputer Center, University of California - San Diego, La Jolla, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070583038","display_name":"Peter W. Rose","orcid":"https://orcid.org/0000-0001-9981-9750"},"institutions":[{"id":"https://openalex.org/I181653535","display_name":"San Diego Supercomputer Center","ror":"https://ror.org/04mg3nk07","country_code":"US","type":"facility","lineage":["https://openalex.org/I181653535","https://openalex.org/I36258959"]},{"id":"https://openalex.org/I36258959","display_name":"University of California San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Peter W Rose","raw_affiliation_strings":["San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0505, La Jolla, CA, 92093-0505, USA","San Diego Supercomputer Center, University of California - San Diego, La Jolla, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0505, La Jolla, CA, 92093-0505, USA","institution_ids":["https://openalex.org/I181653535","https://openalex.org/I36258959"]},{"raw_affiliation_string":"San Diego Supercomputer Center, University of California - San Diego, La Jolla, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075833022","display_name":"Philip E. Bourne","orcid":"https://orcid.org/0000-0002-7618-7292"},"institutions":[{"id":"https://openalex.org/I181653535","display_name":"San Diego Supercomputer Center","ror":"https://ror.org/04mg3nk07","country_code":"US","type":"facility","lineage":["https://openalex.org/I181653535","https://openalex.org/I36258959"]},{"id":"https://openalex.org/I36258959","display_name":"University of California San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]},{"id":"https://openalex.org/I6750721","display_name":"University of Montana","ror":"https://ror.org/0078xmk34","country_code":"US","type":"education","lineage":["https://openalex.org/I6750721"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Philip E Bourne","raw_affiliation_strings":["San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0505, La Jolla, CA, 92093-0505, USA","Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, 9500 Gilman Drive, Mailcode 0743, La Jolla, CA, 92093-0743, USA","Skaggs School of Pharmacy and Pharmaceutical Sciences,University of California,San Diego, La Jolla, USA","San Diego Supercomputer Center, University of California San Diego, La Jolla, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0505, La Jolla, CA, 92093-0505, USA","institution_ids":["https://openalex.org/I181653535","https://openalex.org/I36258959"]},{"raw_affiliation_string":"Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, 9500 Gilman Drive, Mailcode 0743, La Jolla, CA, 92093-0743, USA","institution_ids":["https://openalex.org/I6750721","https://openalex.org/I36258959"]},{"raw_affiliation_string":"Skaggs School of Pharmacy and Pharmaceutical Sciences,University of California,San Diego, La Jolla, USA","institution_ids":["https://openalex.org/I6750721"]},{"raw_affiliation_string":"San Diego Supercomputer Center, University of California San Diego, La Jolla, USA","institution_ids":["https://openalex.org/I181653535","https://openalex.org/I36258959"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5074966371","display_name":"J. Lynn Fink","orcid":"https://orcid.org/0000-0003-2912-6048"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]},{"id":"https://openalex.org/I6750721","display_name":"University of Montana","ror":"https://ror.org/0078xmk34","country_code":"US","type":"education","lineage":["https://openalex.org/I6750721"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"J Lynn Fink","raw_affiliation_strings":["Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, 9500 Gilman Drive, Mailcode 0743, La Jolla, CA, 92093-0743, USA","Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California, San Diego, La Jolla, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, 9500 Gilman Drive, Mailcode 0743, La Jolla, CA, 92093-0743, USA","institution_ids":["https://openalex.org/I6750721","https://openalex.org/I36258959"]},{"raw_affiliation_string":"Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California, San Diego, La Jolla, USA","institution_ids":["https://openalex.org/I36258959"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":8,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.8168,"has_fulltext":true,"cited_by_count":9,"citation_normalized_percentile":{"value":0.71148085,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"11","issue":"1","first_page":"220","last_page":"220"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9815999865531921,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9815999865531921,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.0035000001080334187,"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/T11642","display_name":"Genomics and Rare Diseases","score":0.002400000113993883,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/protein-data-bank","display_name":"Protein Data Bank (RCSB PDB)","score":0.695156991481781},{"id":"https://openalex.org/keywords/protein-data-bank","display_name":"Protein Data Bank","score":0.6187428832054138},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.46956825256347656},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.449283629655838},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.4449997544288635},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.4382197856903076},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.3980659246444702},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.3213738799095154},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3152126669883728},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1742427945137024},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.1648116111755371},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.09513595700263977}],"concepts":[{"id":"https://openalex.org/C65556437","wikidata":"https://www.wikidata.org/wiki/Q766195","display_name":"Protein Data Bank (RCSB PDB)","level":2,"score":0.695156991481781},{"id":"https://openalex.org/C119145174","wikidata":"https://www.wikidata.org/wiki/Q7251429","display_name":"Protein Data Bank","level":3,"score":0.6187428832054138},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.46956825256347656},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.449283629655838},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.4449997544288635},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.4382197856903076},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3980659246444702},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3213738799095154},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3152126669883728},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1742427945137024},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.1648116111755371},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.09513595700263977},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","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}],"mesh":[{"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":"D011642","descriptor_name":"Publications","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011642","descriptor_name":"Publications","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011642","descriptor_name":"Publications","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":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D039781","descriptor_name":"PubMed","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D039781","descriptor_name":"PubMed","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D039781","descriptor_name":"PubMed","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/1471-2105-11-220","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-11-220","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-11-220","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:20429930","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20429930","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:325fb7718bdd4aac917e5ad37df6c3c1","is_oa":true,"landing_page_url":"https://doaj.org/article/325fb7718bdd4aac917e5ad37df6c3c1","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","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":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 11, Iss 1, p 220 (2010)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:2880030","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2880030","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-11-220","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-11-220","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-11-220","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2276489800","display_name":"PDB Management by the Research Collaboratory for Structural Bioinformatics","funder_award_id":"0829586","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G69765774","display_name":"BioLit: Open Source Tools for Integrating Biological Literature and Databases","funder_award_id":"0544575","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320306084","display_name":"U.S. Department of Energy","ror":"https://ror.org/01bj3aw27"},{"id":"https://openalex.org/F4320332603","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"},{"id":"https://openalex.org/F4320337357","display_name":"National Institute of Diabetes and Digestive and Kidney Diseases","ror":"https://ror.org/00adh9b73"},{"id":"https://openalex.org/F4320337359","display_name":"National Institute of Neurological Disorders and Stroke","ror":"https://ror.org/01s5ya894"},{"id":"https://openalex.org/F4320337398","display_name":"Division of Biological Infrastructure","ror":"https://ror.org/04qn9mx93"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2002506464.pdf","grobid_xml":"https://content.openalex.org/works/W2002506464.grobid-xml"},"referenced_works_count":15,"referenced_works":["https://openalex.org/W1552716293","https://openalex.org/W2044514479","https://openalex.org/W2048503857","https://openalex.org/W2053673723","https://openalex.org/W2057240659","https://openalex.org/W2067522876","https://openalex.org/W2067702740","https://openalex.org/W2068536210","https://openalex.org/W2074872734","https://openalex.org/W2079691202","https://openalex.org/W2096317090","https://openalex.org/W2130479394","https://openalex.org/W2132784310","https://openalex.org/W2133319541","https://openalex.org/W2168866167"],"related_works":["https://openalex.org/W2020669016","https://openalex.org/W2088162897","https://openalex.org/W2090630809","https://openalex.org/W2106612397","https://openalex.org/W4387804157","https://openalex.org/W2518314460","https://openalex.org/W2589205199","https://openalex.org/W2119891507","https://openalex.org/W2089869950","https://openalex.org/W2047544230"],"abstract_inverted_index":{"BACKGROUND:":[0],"Biological":[1],"data":[2,85,220],"have":[3,311],"traditionally":[4,21],"been":[5,22,259,312],"stored":[6],"and":[7,32,50,86,108,146,179,184,201,240,261,309,317,326,332],"made":[8],"publicly":[9,222],"available":[10],"through":[11,198,285],"a":[12,208,250,255,269],"variety":[13],"of":[14,37,43,62,79,83,95,116,203,268],"on-line":[15,31],"databases,":[16,90],"whereas":[17],"biological":[18,89,104],"knowledge":[19,301],"has":[20,258],"found":[23],"in":[24,128,142,176,279,314],"the":[25,60,67,93,96,129,135,148,161,199,204,218,246,266,280,286,304,321],"printed":[26],"literature.":[27],"With":[28],"journals":[29],"now":[30],"providing":[33,217,295],"an":[34,76],"increasing":[35],"amount":[36],"open":[38,63,130,325],"access":[39,64,131,328],"content,":[40],"often":[41],"free":[42,327],"copyright":[44],"restriction,":[45],"this":[46,56,302,315],"distinction":[47],"between":[48,238],"database":[49,109,115,308,331],"literature":[51,65,194,239,288,310,333],"is":[52,227,275,303],"blurring.":[53],"To":[54,299],"exploit":[55],"opportunity":[57],"we":[58,156],"present":[59],"integration":[61,237],"with":[66,81,160,245],"RCSB":[68,162,192,247],"Protein":[69],"Data":[70],"Bank":[71],"(PDB).":[72],"RESULTS:":[73],"BioLit":[74,158,212],"provides":[75,249],"enhanced":[77],"view":[78,195,252],"articles":[80,141,178,205],"markup":[82],"semantic":[84],"links":[87],"to":[88,102,113,169,320,329],"based":[91],"on":[92],"content":[94],"article.":[97],"For":[98],"example,":[99],"words":[100],"matching":[101],"existing":[103],"ontologies":[105],"are":[106,111,126,174,216,221],"highlighted":[107],"identifiers":[110],"linked":[112],"their":[114],"origin.":[117],"Among":[118],"other":[119],"functions,":[120],"it":[121,274,318],"identifies":[122],"PDB":[123,163,171,193,270],"IDs":[124,172],"that":[125,173,206,215,229,307],"mentioned":[127,175],"literature,":[132],"by":[133,165,324],"parsing":[134],"full":[136],"text":[137,185],"for":[138,187,253],"all":[139],"research":[140,177],"PubMed":[143],"Central":[144],"(PMC)":[145],"exposing":[147],"results":[149,159],"as":[150,242],"simple":[151],"XML":[152],"Web":[153,213],"Services.":[154],"Here,":[155],"integrate":[157],"website":[164],"using":[166],"these":[167,232],"services":[168,233],"find":[170],"subsequently":[180],"retrieving":[181],"abstract,":[182],"figures,":[183],"excerpts":[186],"those":[188],"articles.":[189],"A":[190,224],"new":[191,296],"permits":[196],"browsing":[197],"figures":[200],"abstracts":[202],"mention":[207,267],"given":[209,256],"structure.":[210],"The":[211,236],"Services":[214],"underlying":[219],"accessible.":[223],"client":[225],"library":[226],"provided":[228],"supports":[230],"querying":[231],"(Java).":[234],"CONCLUSIONS:":[235],"websites,":[241],"demonstrated":[243],"here":[244],"PDB,":[248],"broader":[251],"how":[254],"structure":[257,271],"analyzed":[260],"used.":[262],"This":[263],"approach":[264],"detects":[265],"even":[272],"if":[273],"not":[276],"formally":[277],"cited":[278],"paper.":[281],"Other":[282],"structures":[283],"related":[284],"same":[287],"references":[289],"can":[290],"also":[291],"be":[292],"identified,":[293],"possibly":[294],"scientific":[297],"insight.":[298],"our":[300],"first":[305],"time":[306],"integrated":[313],"way":[316],"speaks":[319],"opportunities":[322],"afforded":[323],"both":[330],"content.":[334]},"counts_by_year":[{"year":2018,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2012,"cited_by_count":2}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
