{"id":"https://openalex.org/W2104858809","doi":"https://doi.org/10.1186/1471-2105-9-s9-s5","title":"ProteoLens: a visual analytic tool for multi-scale database-driven biological network data mining","display_name":"ProteoLens: a visual analytic tool for multi-scale database-driven biological network data mining","publication_year":2008,"publication_date":"2008-08-12","ids":{"openalex":"https://openalex.org/W2104858809","doi":"https://doi.org/10.1186/1471-2105-9-s9-s5","mag":"2104858809","pmid":"https://pubmed.ncbi.nlm.nih.gov/18793469"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-9-s9-s5","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-9-s9-s5","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-9-S9-S5","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/10.1186/1471-2105-9-S9-S5","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5005940300","display_name":"Tianxiao Huan","orcid":"https://orcid.org/0000-0001-5840-9413"},"institutions":[{"id":"https://openalex.org/I55769427","display_name":"Indiana University \u2013 Purdue University Indianapolis","ror":"https://ror.org/05gxnyn08","country_code":"US","type":"education","lineage":["https://openalex.org/I55769427","https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Tianxiao Huan","raw_affiliation_strings":["School of Informatics, Indiana University - Purdue University, Indianapolis, IN 46202, USA. huant@iupui.edu","School of Informatics, Indiana University \u2013 Purdue University, Indianapolis, IN, 46202, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Informatics, Indiana University - Purdue University, Indianapolis, IN 46202, USA. huant@iupui.edu","institution_ids":["https://openalex.org/I55769427"]},{"raw_affiliation_string":"School of Informatics, Indiana University \u2013 Purdue University, Indianapolis, IN, 46202, USA","institution_ids":["https://openalex.org/I55769427"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041619925","display_name":"Andrey Sivachenko","orcid":null},"institutions":[{"id":"https://openalex.org/I107606265","display_name":"Broad Institute","ror":"https://ror.org/05a0ya142","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I107606265"]},{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Andrey Y Sivachenko","raw_affiliation_strings":["the Broad Institute of MIT, Harvard University, Cambridge, MA, 02141, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"the Broad Institute of MIT, Harvard University, Cambridge, MA, 02141, USA","institution_ids":["https://openalex.org/I107606265","https://openalex.org/I136199984"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030188411","display_name":"Scott H. Harrison","orcid":"https://orcid.org/0000-0002-9577-445X"},"institutions":[{"id":"https://openalex.org/I4210155419","display_name":"Center for Systems Biology","ror":"https://ror.org/05r3dyn47","country_code":"US","type":"facility","lineage":["https://openalex.org/I136199984","https://openalex.org/I4210087915","https://openalex.org/I4210155419","https://openalex.org/I48633490"]},{"id":"https://openalex.org/I55769427","display_name":"Indiana University \u2013 Purdue University Indianapolis","ror":"https://ror.org/05gxnyn08","country_code":"US","type":"education","lineage":["https://openalex.org/I55769427","https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Scott H Harrison","raw_affiliation_strings":["Indiana Center for Systems Biology and Personalized Medicine, Indianapolis, IN, 46202, USA","School of Informatics, Indiana University \u2013 Purdue University, Indianapolis, IN, 46202, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Indiana Center for Systems Biology and Personalized Medicine, Indianapolis, IN, 46202, USA","institution_ids":["https://openalex.org/I4210155419"]},{"raw_affiliation_string":"School of Informatics, Indiana University \u2013 Purdue University, Indianapolis, IN, 46202, USA","institution_ids":["https://openalex.org/I55769427"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5058469124","display_name":"Jake Y. Chen","orcid":"https://orcid.org/0000-0001-8829-7504"},"institutions":[{"id":"https://openalex.org/I135191193","display_name":"University of Indianapolis","ror":"https://ror.org/052133d12","country_code":"US","type":"education","lineage":["https://openalex.org/I135191193"]},{"id":"https://openalex.org/I4210155419","display_name":"Center for Systems Biology","ror":"https://ror.org/05r3dyn47","country_code":"US","type":"facility","lineage":["https://openalex.org/I136199984","https://openalex.org/I4210087915","https://openalex.org/I4210155419","https://openalex.org/I48633490"]},{"id":"https://openalex.org/I55769427","display_name":"Indiana University \u2013 Purdue University Indianapolis","ror":"https://ror.org/05gxnyn08","country_code":"US","type":"education","lineage":["https://openalex.org/I55769427","https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Jake Y Chen","raw_affiliation_strings":["Department of Computer & Information Science, Purdue University, Indianapolis, IN, 46202, USA","Indiana Center for Systems Biology and Personalized Medicine, Indianapolis, IN, 46202, USA","School of Informatics, Indiana University \u2013 Purdue University, Indianapolis, IN, 46202, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer & Information Science, Purdue University, Indianapolis, IN, 46202, USA","institution_ids":["https://openalex.org/I135191193","https://openalex.org/I55769427"]},{"raw_affiliation_string":"Indiana Center for Systems Biology and Personalized Medicine, Indianapolis, IN, 46202, USA","institution_ids":["https://openalex.org/I4210155419"]},{"raw_affiliation_string":"School of Informatics, Indiana University \u2013 Purdue University, Indianapolis, IN, 46202, USA","institution_ids":["https://openalex.org/I55769427"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5058469124"],"corresponding_institution_ids":["https://openalex.org/I135191193","https://openalex.org/I4210155419","https://openalex.org/I55769427"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":2.7293,"has_fulltext":true,"cited_by_count":36,"citation_normalized_percentile":{"value":0.90584257,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"9","issue":"S9","first_page":"S5","last_page":"S5"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.7088000178337097,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.7088000178337097,"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/T10799","display_name":"Data Visualization and Analytics","score":0.1574999988079071,"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/T12292","display_name":"Graph Theory and Algorithms","score":0.02160000056028366,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8502889275550842},{"id":"https://openalex.org/keywords/graph-drawing","display_name":"Graph drawing","score":0.6000718474388123},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.5908762216567993},{"id":"https://openalex.org/keywords/data-visualization","display_name":"Data visualization","score":0.4662811756134033},{"id":"https://openalex.org/keywords/relational-database","display_name":"Relational database","score":0.4656316637992859},{"id":"https://openalex.org/keywords/software-visualization","display_name":"Software visualization","score":0.4640592336654663},{"id":"https://openalex.org/keywords/oracle","display_name":"Oracle","score":0.4633404016494751},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.44018301367759705},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.43713000416755676},{"id":"https://openalex.org/keywords/sql","display_name":"SQL","score":0.43148407340049744},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3869772255420685},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.3572959303855896},{"id":"https://openalex.org/keywords/software-system","display_name":"Software system","score":0.27096810936927795},{"id":"https://openalex.org/keywords/software-engineering","display_name":"Software engineering","score":0.22383585572242737},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.20384958386421204},{"id":"https://openalex.org/keywords/component-based-software-engineering","display_name":"Component-based software engineering","score":0.16464757919311523}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8502889275550842},{"id":"https://openalex.org/C112953755","wikidata":"https://www.wikidata.org/wiki/Q739462","display_name":"Graph drawing","level":3,"score":0.6000718474388123},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.5908762216567993},{"id":"https://openalex.org/C172367668","wikidata":"https://www.wikidata.org/wiki/Q6504956","display_name":"Data visualization","level":3,"score":0.4662811756134033},{"id":"https://openalex.org/C5655090","wikidata":"https://www.wikidata.org/wiki/Q192588","display_name":"Relational database","level":2,"score":0.4656316637992859},{"id":"https://openalex.org/C4379982","wikidata":"https://www.wikidata.org/wiki/Q1273511","display_name":"Software visualization","level":5,"score":0.4640592336654663},{"id":"https://openalex.org/C55166926","wikidata":"https://www.wikidata.org/wiki/Q2892946","display_name":"Oracle","level":2,"score":0.4633404016494751},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.44018301367759705},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.43713000416755676},{"id":"https://openalex.org/C510870499","wikidata":"https://www.wikidata.org/wiki/Q47607","display_name":"SQL","level":2,"score":0.43148407340049744},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3869772255420685},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3572959303855896},{"id":"https://openalex.org/C149091818","wikidata":"https://www.wikidata.org/wiki/Q2429814","display_name":"Software system","level":3,"score":0.27096810936927795},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.22383585572242737},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.20384958386421204},{"id":"https://openalex.org/C174683762","wikidata":"https://www.wikidata.org/wiki/Q609588","display_name":"Component-based software engineering","level":4,"score":0.16464757919311523},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","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":"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":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","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":"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":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","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":true},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/1471-2105-9-s9-s5","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-9-s9-s5","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-9-S9-S5","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:18793469","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/18793469","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:c28415bd1c1a4b84a5bbcc40b5e447af","is_oa":false,"landing_page_url":"https://doaj.org/article/c28415bd1c1a4b84a5bbcc40b5e447af","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 9, Iss Suppl 9, p S5 (2008)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:2537576","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2537576","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"},{"id":"pmh:oai:scholarworks.indianapolis.iu.edu:1805/24507","is_oa":true,"landing_page_url":"https://hdl.handle.net/1805/24507","pdf_url":null,"source":{"id":"https://openalex.org/S4306400987","display_name":"IUScholarWorks (Indiana University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I592451","host_organization_name":"Indiana University","host_organization_lineage":["https://openalex.org/I592451"],"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":"Publisher","raw_type":"Article"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-9-s9-s5","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-9-s9-s5","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-9-S9-S5","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":[],"funders":[{"id":"https://openalex.org/F4320309036","display_name":"Purdue University","ror":"https://ror.org/02dqehb95"},{"id":"https://openalex.org/F4320310263","display_name":"Indiana University-Purdue University Indianapolis","ror":"https://ror.org/05gxnyn08"},{"id":"https://openalex.org/F4320322725","display_name":"China Scholarship Council","ror":"https://ror.org/04atp4p48"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2104858809.pdf","grobid_xml":"https://content.openalex.org/works/W2104858809.grobid-xml"},"referenced_works_count":32,"referenced_works":["https://openalex.org/W631602627","https://openalex.org/W1544009106","https://openalex.org/W1811927564","https://openalex.org/W1966519033","https://openalex.org/W1970759948","https://openalex.org/W1971425971","https://openalex.org/W2009313526","https://openalex.org/W2010134474","https://openalex.org/W2011986160","https://openalex.org/W2045131140","https://openalex.org/W2057626690","https://openalex.org/W2069486984","https://openalex.org/W2083045667","https://openalex.org/W2098951852","https://openalex.org/W2104768328","https://openalex.org/W2110280725","https://openalex.org/W2114068014","https://openalex.org/W2118936326","https://openalex.org/W2119412782","https://openalex.org/W2123280311","https://openalex.org/W2123500593","https://openalex.org/W2132582966","https://openalex.org/W2133747068","https://openalex.org/W2134672568","https://openalex.org/W2139483589","https://openalex.org/W2140635350","https://openalex.org/W2144014661","https://openalex.org/W2159675211","https://openalex.org/W2419563636","https://openalex.org/W4237095724","https://openalex.org/W4240861547","https://openalex.org/W4255855797"],"related_works":["https://openalex.org/W23253958","https://openalex.org/W2327539013","https://openalex.org/W2111288686","https://openalex.org/W2171298469","https://openalex.org/W2051922690","https://openalex.org/W2098027521","https://openalex.org/W2296932537","https://openalex.org/W4214598766","https://openalex.org/W2082199132","https://openalex.org/W2088412871"],"abstract_inverted_index":{"BACKGROUND:":[0],"New":[1],"systems":[2,92,346],"biology":[3,347],"studies":[4],"require":[5],"researchers":[6,39],"to":[7,20,37,57,75,78,93,128,165,257,272,323],"understand":[8],"how":[9],"interplay":[10],"among":[11],"myriads":[12],"of":[13,44,62,198,206,211,266,280,306],"biomolecular":[14,45],"entities":[15],"is":[16,102,331],"orchestrated":[17],"in":[18,33,183,342],"order":[19],"achieve":[21],"high-level":[22],"cellular":[23],"and":[24,118,145,176,190,238,261,269,298,345],"physiological":[25,60],"functions.":[26],"Many":[27],"software":[28,71,113,162],"tools":[29,72],"have":[30],"been":[31],"developed":[32,77,106],"the":[34,80,160,209,259,263,278],"past":[35],"decade":[36],"help":[38,163],"visually":[40],"navigate":[41],"large":[42],"networks":[43],"interactions":[46],"with":[47,98,194,319],"built-in":[48],"template-based":[49],"query":[50,155],"capabilities.":[51],"To":[52],"further":[53],"advance":[54],"researchers'":[55],"ability":[56],"interrogate":[58],"global":[59],"states":[61],"cells":[63],"through":[64,284],"multi-scale":[65,120],"visual":[66,84,111,200,264,328,334],"network":[67,168,213,223,232,253,260,287,297,327,344],"explorations,":[68],"new":[69,282],"visualization":[70,161,172,215,288],"still":[73],"need":[74],"be":[76,151],"empower":[79],"analysis.":[81],"A":[82],"robust":[83,154],"data":[85,96,169,182,214,224,239,254,274,314],"analysis":[86],"platform":[87,336],"driven":[88],"by":[89],"database":[90,126,133,321],"management":[91,322],"perform":[94,262,324],"bi-directional":[95],"processing-to-visualizations":[97],"declarative":[99],"querying":[100],"capabilities":[101,283],"needed.":[103],"RESULTS:":[104],"We":[105,276],"ProteoLens":[107,178,207,307,330],"as":[108,242],"a":[109,171,195,332],"JAVA-based":[110],"analytic":[112,335],"tool":[114],"for":[115,174,311],"creating,":[116],"annotating":[117],"exploring":[119],"biological":[121,286],"networks.":[122],"It":[123],"supports":[124,179],"direct":[125],"connectivity":[127],"either":[129],"Oracle":[130],"or":[131,235],"PostgreSQL":[132],"tables/views,":[134],"on":[135],"which":[136,227],"SQL":[137],"statements":[138],"using":[139],"both":[140],"Data":[141,146],"Definition":[142],"Languages":[143],"(DDL)":[144],"Manipulation":[147],"languages":[148,156],"(DML)":[149],"may":[150],"specified.":[152],"The":[153,203,303],"embedded":[157],"directly":[158],"within":[159],"users":[164],"bring":[166],"their":[167],"into":[170,217],"context":[173],"annotation":[175,265],"exploration.":[177],"graph/network":[180],"represented":[181],"standard":[184],"Graph":[185],"Modeling":[186],"Language":[187],"(GML)":[188],"formats,":[189],"this":[191],"enables":[192,208],"interoperation":[193],"wide":[196],"range":[197],"other":[199],"layout":[201],"tools.":[202],"architectural":[204,304],"design":[205,305],"de-coupling":[210],"complex":[212],"tasks":[216],"two":[218],"distinct":[219],"phases:":[220],"1)":[221],"creating":[222],"association":[225,255,293],"rules,":[226],"are":[228,317],"mapping":[229,300],"rules":[230,256],"between":[231],"node":[233],"IDs":[234,237],"edge":[236],"attributes":[240],"such":[241],"functional":[243],"annotations,":[244],"expression":[245],"levels,":[246],"scores,":[247],"synonyms,":[248],"descriptions":[249],"etc;":[250],"2)":[251],"applying":[252],"build":[258],"graph":[267],"nodes":[268],"edges":[270],"according":[271],"associated":[273],"values.":[275],"demonstrated":[277],"advantages":[279],"these":[281],"three":[285],"case":[289],"studies:":[290],"human":[291],"disease":[292],"network,":[294],"drug-target":[295],"interaction":[296],"protein-peptide":[299],"network.":[301],"CONCLUSION:":[302],"makes":[308],"it":[309],"suitable":[310],"bioinformatics":[312],"expert":[313],"analysts":[315],"who":[316],"experienced":[318],"relational":[320],"large-scale":[325],"integrated":[326],"explorations.":[329],"promising":[333],"that":[337],"will":[338],"facilitate":[339],"knowledge":[340],"discoveries":[341],"future":[343],"studies.":[348]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":4},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":2},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":3},{"year":2012,"cited_by_count":1}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}