{"id":"https://openalex.org/W2070941303","doi":"https://doi.org/10.1186/1471-2105-14-s14-s10","title":"Towards human-computer synergetic analysis of large-scale biological data","display_name":"Towards human-computer synergetic analysis of large-scale biological data","publication_year":2013,"publication_date":"2013-10-01","ids":{"openalex":"https://openalex.org/W2070941303","doi":"https://doi.org/10.1186/1471-2105-14-s14-s10","mag":"2070941303","pmid":"https://pubmed.ncbi.nlm.nih.gov/24267485"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-14-s14-s10","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-14-s14-s10","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-14-S14-S10","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/10.1186/1471-2105-14-S14-S10","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5073550054","display_name":"Rahul Singh","orcid":"https://orcid.org/0000-0003-3900-4298"},"institutions":[{"id":"https://openalex.org/I4210157321","display_name":"Center for Discovery","ror":"https://ror.org/04jna0a58","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210157321"]},{"id":"https://openalex.org/I71838634","display_name":"San Francisco State University","ror":"https://ror.org/05ykr0121","country_code":"US","type":"education","lineage":["https://openalex.org/I71838634"]},{"id":"https://openalex.org/I180670191","display_name":"University of California, San Francisco","ror":"https://ror.org/043mz5j54","country_code":"US","type":"education","lineage":["https://openalex.org/I180670191"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Rahul Singh","raw_affiliation_strings":["Center for Discovery and Innovation in Parasitic Diseases, University of California, San Francisco, CA, USA","Department of Computer Science, San Francisco State University, San Francisco, CA, USA","Department of Computer Science, San Francisco State University, San Francisco, USA","Center for Discovery and Innovation in Parasitic Diseases, University of California, San Francisco, USA"],"affiliations":[{"raw_affiliation_string":"Center for Discovery and Innovation in Parasitic Diseases, University of California, San Francisco, CA, USA","institution_ids":["https://openalex.org/I4210157321","https://openalex.org/I180670191"]},{"raw_affiliation_string":"Department of Computer Science, San Francisco State University, San Francisco, CA, USA","institution_ids":["https://openalex.org/I71838634"]},{"raw_affiliation_string":"Department of Computer Science, San Francisco State University, San Francisco, USA","institution_ids":["https://openalex.org/I71838634"]},{"raw_affiliation_string":"Center for Discovery and Innovation in Parasitic Diseases, University of California, San Francisco, USA","institution_ids":["https://openalex.org/I180670191"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101757183","display_name":"Hui Yang","orcid":"https://orcid.org/0000-0001-7122-1212"},"institutions":[{"id":"https://openalex.org/I71838634","display_name":"San Francisco State University","ror":"https://ror.org/05ykr0121","country_code":"US","type":"education","lineage":["https://openalex.org/I71838634"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hui Yang","raw_affiliation_strings":["Department of Computer Science, San Francisco State University, San Francisco, CA, USA","Department of Computer Science, San Francisco State University, San Francisco, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, San Francisco State University, San Francisco, CA, USA","institution_ids":["https://openalex.org/I71838634"]},{"raw_affiliation_string":"Department of Computer Science, San Francisco State University, San Francisco, USA","institution_ids":["https://openalex.org/I71838634"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070748978","display_name":"Ben Dalziel","orcid":null},"institutions":[{"id":"https://openalex.org/I71838634","display_name":"San Francisco State University","ror":"https://ror.org/05ykr0121","country_code":"US","type":"education","lineage":["https://openalex.org/I71838634"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ben Dalziel","raw_affiliation_strings":["Department of Computer Science, San Francisco State University, San Francisco, CA, USA","Department of Computer Science, San Francisco State University, San Francisco, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, San Francisco State University, San Francisco, CA, USA","institution_ids":["https://openalex.org/I71838634"]},{"raw_affiliation_string":"Department of Computer Science, San Francisco State University, San Francisco, USA","institution_ids":["https://openalex.org/I71838634"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083526005","display_name":"Daniel Asarnow","orcid":"https://orcid.org/0000-0001-7870-5308"},"institutions":[{"id":"https://openalex.org/I71838634","display_name":"San Francisco State University","ror":"https://ror.org/05ykr0121","country_code":"US","type":"education","lineage":["https://openalex.org/I71838634"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Daniel Asarnow","raw_affiliation_strings":["Department of Computer Science, San Francisco State University, San Francisco, CA, USA","Department of Computer Science, San Francisco State University, San Francisco, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, San Francisco State University, San Francisco, CA, USA","institution_ids":["https://openalex.org/I71838634"]},{"raw_affiliation_string":"Department of Computer Science, San Francisco State University, San Francisco, USA","institution_ids":["https://openalex.org/I71838634"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5113567737","display_name":"William Murad","orcid":null},"institutions":[{"id":"https://openalex.org/I71838634","display_name":"San Francisco State University","ror":"https://ror.org/05ykr0121","country_code":"US","type":"education","lineage":["https://openalex.org/I71838634"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"William Murad","raw_affiliation_strings":["Department of Computer Science, San Francisco State University, San Francisco, CA, USA","Department of Computer Science, San Francisco State University, San Francisco, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, San Francisco State University, San Francisco, CA, USA","institution_ids":["https://openalex.org/I71838634"]},{"raw_affiliation_string":"Department of Computer Science, San Francisco State University, San Francisco, USA","institution_ids":["https://openalex.org/I71838634"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052531796","display_name":"David Foote","orcid":null},"institutions":[{"id":"https://openalex.org/I71838634","display_name":"San Francisco State University","ror":"https://ror.org/05ykr0121","country_code":"US","type":"education","lineage":["https://openalex.org/I71838634"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"David Foote","raw_affiliation_strings":["Open University Program, San Francisco State University, CA, USA","Open University Program, San Francisco State University, USA"],"affiliations":[{"raw_affiliation_string":"Open University Program, San Francisco State University, CA, USA","institution_ids":["https://openalex.org/I71838634"]},{"raw_affiliation_string":"Open University Program, San Francisco State University, USA","institution_ids":["https://openalex.org/I71838634"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039967728","display_name":"Matthew Gormley","orcid":"https://orcid.org/0000-0003-2042-1534"},"institutions":[{"id":"https://openalex.org/I180670191","display_name":"University of California, San Francisco","ror":"https://ror.org/043mz5j54","country_code":"US","type":"education","lineage":["https://openalex.org/I180670191"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Matthew Gormley","raw_affiliation_strings":["Department of Obstetrics, Gynecology, and Reproductive Sciences, University of California, San Francisco, CA, USA","Department of Obstetrics, Gynecology, & Reproductive Sciences, University of California San Francisco, USA"],"affiliations":[{"raw_affiliation_string":"Department of Obstetrics, Gynecology, and Reproductive Sciences, University of California, San Francisco, CA, USA","institution_ids":["https://openalex.org/I180670191"]},{"raw_affiliation_string":"Department of Obstetrics, Gynecology, & Reproductive Sciences, University of California San Francisco, USA","institution_ids":["https://openalex.org/I180670191"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030304855","display_name":"Jonathon H. Stillman","orcid":"https://orcid.org/0000-0002-4783-3830"},"institutions":[{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]},{"id":"https://openalex.org/I71838634","display_name":"San Francisco State University","ror":"https://ror.org/05ykr0121","country_code":"US","type":"education","lineage":["https://openalex.org/I71838634"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jonathan Stillman","raw_affiliation_strings":["Department of Integrative Biology, University of California, Berkeley, CA, USA","Romberg Tiburon Center and Department of Biology, San Francisco State University, San Francisco, CA, USA","Romberg Tiburon Center and Department of Biology, San Francisco State University, San Francisco, USA","Department of Integrative Biology, University of California, Berkeley, USA"],"affiliations":[{"raw_affiliation_string":"Department of Integrative Biology, University of California, Berkeley, CA, USA","institution_ids":["https://openalex.org/I95457486"]},{"raw_affiliation_string":"Romberg Tiburon Center and Department of Biology, San Francisco State University, San Francisco, CA, USA","institution_ids":["https://openalex.org/I71838634"]},{"raw_affiliation_string":"Romberg Tiburon Center and Department of Biology, San Francisco State University, San Francisco, USA","institution_ids":["https://openalex.org/I71838634"]},{"raw_affiliation_string":"Department of Integrative Biology, University of California, Berkeley, USA","institution_ids":["https://openalex.org/I95457486"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5080796049","display_name":"Susan J. Fisher","orcid":"https://orcid.org/0000-0001-7745-4850"},"institutions":[{"id":"https://openalex.org/I180670191","display_name":"University of California, San Francisco","ror":"https://ror.org/043mz5j54","country_code":"US","type":"education","lineage":["https://openalex.org/I180670191"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Susan Fisher","raw_affiliation_strings":["Department of Anatomy and Pharmaceutical Chemistry, University of California, San Francisco, San Francisco, CA, USA","Department of Anatomy and Pharmaceutical Chemistry, University of California, San Francisco, San Francisco, USA"],"affiliations":[{"raw_affiliation_string":"Department of Anatomy and Pharmaceutical Chemistry, University of California, San Francisco, San Francisco, CA, USA","institution_ids":["https://openalex.org/I180670191"]},{"raw_affiliation_string":"Department of Anatomy and Pharmaceutical Chemistry, University of California, San Francisco, San Francisco, USA","institution_ids":["https://openalex.org/I180670191"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5073550054"],"corresponding_institution_ids":["https://openalex.org/I180670191","https://openalex.org/I4210157321","https://openalex.org/I71838634"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.8293,"has_fulltext":true,"cited_by_count":15,"citation_normalized_percentile":{"value":0.77346032,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"14","issue":"S14","first_page":"S10","last_page":"S10"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10799","display_name":"Data Visualization and Analytics","score":0.998199999332428,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10799","display_name":"Data Visualization and Analytics","score":0.998199999332428,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9944999814033508,"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.9679999947547913,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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":0.7587404251098633},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.7460128664970398},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.6110857725143433},{"id":"https://openalex.org/keywords/biological-data","display_name":"Biological data","score":0.588187038898468},{"id":"https://openalex.org/keywords/exploratory-data-analysis","display_name":"Exploratory data analysis","score":0.5364547371864319},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.5310688018798828},{"id":"https://openalex.org/keywords/domain","display_name":"Domain (mathematical analysis)","score":0.48689237236976624},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.44982028007507324},{"id":"https://openalex.org/keywords/interoperability","display_name":"Interoperability","score":0.42459675669670105},{"id":"https://openalex.org/keywords/paradigm-shift","display_name":"Paradigm shift","score":0.41047215461730957},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3034048080444336},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.291534423828125},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.1623341143131256},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.13638567924499512}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7587404251098633},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.7460128664970398},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.6110857725143433},{"id":"https://openalex.org/C201797286","wikidata":"https://www.wikidata.org/wiki/Q4914986","display_name":"Biological data","level":2,"score":0.588187038898468},{"id":"https://openalex.org/C120894424","wikidata":"https://www.wikidata.org/wiki/Q1322871","display_name":"Exploratory data analysis","level":2,"score":0.5364547371864319},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.5310688018798828},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.48689237236976624},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.44982028007507324},{"id":"https://openalex.org/C20136886","wikidata":"https://www.wikidata.org/wiki/Q749647","display_name":"Interoperability","level":2,"score":0.42459675669670105},{"id":"https://openalex.org/C43540301","wikidata":"https://www.wikidata.org/wiki/Q689971","display_name":"Paradigm shift","level":2,"score":0.41047215461730957},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3034048080444336},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.291534423828125},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.1623341143131256},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.13638567924499512},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003201","descriptor_name":"Computers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003201","descriptor_name":"Computers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003201","descriptor_name":"Computers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011247","descriptor_name":"Pregnancy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011247","descriptor_name":"Pregnancy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011247","descriptor_name":"Pregnancy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","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":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/1471-2105-14-s14-s10","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-14-s14-s10","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-14-S14-S10","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:24267485","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24267485","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:escholarship.org/ark:/13030/qt5vg6m29b","is_oa":false,"landing_page_url":"https://escholarship.org/uc/item/5vg6m29b","pdf_url":null,"source":{"id":"https://openalex.org/S4306400115","display_name":"eScholarship (California Digital Library)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2801248553","host_organization_name":"California Digital Library","host_organization_lineage":["https://openalex.org/I2801248553"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, vol 14, iss Suppl 14","raw_type":"article"},{"id":"pmh:oai:europepmc.org:2845967","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3851181","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-14-s14-s10","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-14-s14-s10","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-14-S14-S10","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/G2019036936","display_name":"Correlating cardiac thermal performance limits with transcriptome profiles during thermal acclimation of the intertidal porcelain crab, Petrolisthes cinctipes","funder_award_id":"0533920","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G2065233809","display_name":"CAREER: Designing Systems for Molecular Query-Retrieval and Molecular Informatics","funder_award_id":"0644418","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G6671297155","display_name":null,"funder_award_id":"CAREER","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G848032724","display_name":null,"funder_award_id":"Science","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/F4320309305","display_name":"San Francisco State University","ror":"https://ror.org/05ykr0121"},{"id":"https://openalex.org/F4320332622","display_name":"University of California, San Francisco","ror":"https://ror.org/043mz5j54"},{"id":"https://openalex.org/F4320332886","display_name":"Department of Integrative Biology, University of California Berkeley","ror":null},{"id":"https://openalex.org/F4320333953","display_name":"Department of Biology, San Francisco State University","ror":null}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2070941303.pdf","grobid_xml":"https://content.openalex.org/works/W2070941303.grobid-xml"},"referenced_works_count":50,"referenced_works":["https://openalex.org/W45534775","https://openalex.org/W99745603","https://openalex.org/W1480376833","https://openalex.org/W1482509850","https://openalex.org/W1521186529","https://openalex.org/W1553621748","https://openalex.org/W1973024926","https://openalex.org/W1992165506","https://openalex.org/W2000968194","https://openalex.org/W2003407908","https://openalex.org/W2010352922","https://openalex.org/W2021129827","https://openalex.org/W2023790301","https://openalex.org/W2027813788","https://openalex.org/W2059550141","https://openalex.org/W2062937620","https://openalex.org/W2080298091","https://openalex.org/W2094998799","https://openalex.org/W2096054707","https://openalex.org/W2097774326","https://openalex.org/W2101142880","https://openalex.org/W2107908438","https://openalex.org/W2117064866","https://openalex.org/W2128653811","https://openalex.org/W2133140903","https://openalex.org/W2133750074","https://openalex.org/W2134815007","https://openalex.org/W2138550913","https://openalex.org/W2144686793","https://openalex.org/W2149019354","https://openalex.org/W2150926065","https://openalex.org/W2153597807","https://openalex.org/W2157289187","https://openalex.org/W2157795344","https://openalex.org/W2158630425","https://openalex.org/W2158864843","https://openalex.org/W2159482845","https://openalex.org/W2159593279","https://openalex.org/W2160697532","https://openalex.org/W2161311439","https://openalex.org/W2162361897","https://openalex.org/W2170984819","https://openalex.org/W2183593162","https://openalex.org/W2337897912","https://openalex.org/W2912889105","https://openalex.org/W3001599156","https://openalex.org/W4248606406","https://openalex.org/W4294107304","https://openalex.org/W4294216483","https://openalex.org/W4300772007"],"related_works":["https://openalex.org/W2093262417","https://openalex.org/W2123131699","https://openalex.org/W913131694","https://openalex.org/W650116260","https://openalex.org/W2378329187","https://openalex.org/W4390790060","https://openalex.org/W2134191509","https://openalex.org/W1603423477","https://openalex.org/W3209454962","https://openalex.org/W2751110224"],"abstract_inverted_index":{"The":[0],"proposed":[1,74],"design":[2],"philosophy,":[3],"combines":[4],"visualization,":[5],"algorithmic":[6],"components":[7],"and":[8,20,45,70,93,112],"cognitive":[9,122],"expertise":[10],"into":[11],"a":[12],"seamless":[13],"processing-analysis-exploration":[14],"framework":[15],"that":[16,28,109],"facilitates":[17],"sense-making,":[18],"exploration,":[19],"discovery.":[21],"Using":[22],"XMAS,":[23],"we":[24,55],"present":[25],"case":[26],"studies":[27,104],"analyze":[29],"transcriptional":[30],"data":[31,99],"from":[32],"two":[33],"highly":[34],"complex":[35,58],"domains:":[36],"gene":[37],"expression":[38],"in":[39],"the":[40,67,73,77,98,125],"placenta":[41],"during":[42,97],"human":[43],"pregnancy":[44],"reaction":[46],"of":[47,72],"marine":[48],"organisms":[49],"to":[50,89],"heat":[51],"stress.":[52],"With":[53],"PSPACE,":[54],"demonstrate":[56,66],"how":[57,81],"structure-function":[59],"relationships":[60],"can":[61,84],"be":[62,85],"explored.":[63],"These":[64],"results":[65,78,115],"novelty,":[68],"advantages,":[69],"distinctions":[71],"paradigm.":[75],"Furthermore,":[76],"also":[79],"highlight":[80],"domain":[82],"insights":[83],"combined":[86],"with":[87,116],"algorithms":[88],"discover":[90],"meaningful":[91],"knowledge":[92],"formulate":[94],"evidence-based":[95],"hypotheses":[96],"analysis":[100],"process.":[101],"Finally,":[102],"user":[103],"against":[105],"comparable":[106],"systems":[107],"indicate":[108],"both":[110],"XMAS":[111,127],"PSPACE":[113,132],"deliver":[114],"better":[117],"interpretability":[118],"while":[119],"placing":[120],"lower":[121],"loads":[123],"on":[124],"users.":[126],"is":[128,133],"available":[129,134],"at:":[130,135],"http://tintin.sfsu.edu:8080/xmas.":[131],"http://pspace.info/.":[136]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":4},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":1},{"year":2013,"cited_by_count":1}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}