{"id":"https://openalex.org/W2055402385","doi":"https://doi.org/10.1186/1471-2105-14-322","title":"3DScapeCS: application of three dimensional, parallel, dynamic network visualization in Cytoscape","display_name":"3DScapeCS: application of three dimensional, parallel, dynamic network visualization in Cytoscape","publication_year":2013,"publication_date":"2013-11-14","ids":{"openalex":"https://openalex.org/W2055402385","doi":"https://doi.org/10.1186/1471-2105-14-322","mag":"2055402385"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-14-322","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-14-322","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-14-322","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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","datacite","doaj"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-14-322","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5053486679","display_name":"Qi Wang","orcid":"https://orcid.org/0000-0002-7827-4808"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210134982","display_name":"Institute of Microbiology","ror":"https://ror.org/047yhep71","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210134982"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Qi Wang","raw_affiliation_strings":["Chinese Academy of Sciences Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100190, People's Republic of China"],"affiliations":[{"raw_affiliation_string":"Chinese Academy of Sciences Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100190, People's Republic of China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210134982"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006553768","display_name":"Biao Tang","orcid":"https://orcid.org/0000-0002-3605-4022"},"institutions":[{"id":"https://openalex.org/I24943067","display_name":"Fudan University","ror":"https://ror.org/013q1eq08","country_code":"CN","type":"education","lineage":["https://openalex.org/I24943067"]},{"id":"https://openalex.org/I4391768242","display_name":"State Key Laboratory of Genetic Engineering","ror":"https://ror.org/01n3rg866","country_code":null,"type":"facility","lineage":["https://openalex.org/I24943067","https://openalex.org/I4391768242"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Biao Tang","raw_affiliation_strings":["State Key Laboratory of Genetic Engineering, Department of Microbiology, School of Life Sciences, Fudan University, Shanghai 200433, People's Republic of China","State Key Laboratory of Genetic Engineering, Department of Microbiology, School of Life Sciences, Fudan University, Shanghai, 200433, People's Republic of China"],"affiliations":[{"raw_affiliation_string":"State Key Laboratory of Genetic Engineering, Department of Microbiology, School of Life Sciences, Fudan University, Shanghai 200433, People's Republic of China","institution_ids":["https://openalex.org/I24943067"]},{"raw_affiliation_string":"State Key Laboratory of Genetic Engineering, Department of Microbiology, School of Life Sciences, Fudan University, Shanghai, 200433, People's Republic of China","institution_ids":["https://openalex.org/I24943067","https://openalex.org/I4391768242"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057068738","display_name":"Lifu Song","orcid":"https://orcid.org/0000-0003-1092-4568"},"institutions":[{"id":"https://openalex.org/I159176309","display_name":"Universit\u00e4t Hamburg","ror":"https://ror.org/00g30e956","country_code":"DE","type":"education","lineage":["https://openalex.org/I159176309"]},{"id":"https://openalex.org/I884043246","display_name":"Hamburg University of Technology","ror":"https://ror.org/04bs1pb34","country_code":"DE","type":"education","lineage":["https://openalex.org/I884043246"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Lifu Song","raw_affiliation_strings":["Institute of Bioprocess and Biosystems Engineering, Hamburg University of Technology, Hamburg, Germany"],"affiliations":[{"raw_affiliation_string":"Institute of Bioprocess and Biosystems Engineering, Hamburg University of Technology, Hamburg, Germany","institution_ids":["https://openalex.org/I159176309","https://openalex.org/I884043246"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101551390","display_name":"Biao Ren","orcid":null},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210134982","display_name":"Institute of Microbiology","ror":"https://ror.org/047yhep71","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210134982"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Biao Ren","raw_affiliation_strings":["Chinese Academy of Sciences Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100190, People's Republic of China"],"affiliations":[{"raw_affiliation_string":"Chinese Academy of Sciences Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100190, People's Republic of China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210134982"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070240569","display_name":"Qun Liang","orcid":null},"institutions":[{"id":"https://openalex.org/I4210165038","display_name":"University of Chinese Academy of Sciences","ror":"https://ror.org/05qbk4x57","country_code":"CN","type":"education","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210165038"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qun Liang","raw_affiliation_strings":["University of Chinese Academy of Sciences, Beijing 100049, People's Republic of China","University of Chinese Academy of Sciences, Beijing, 100049, People's Republic of China"],"affiliations":[{"raw_affiliation_string":"University of Chinese Academy of Sciences, Beijing 100049, People's Republic of China","institution_ids":["https://openalex.org/I4210165038"]},{"raw_affiliation_string":"University of Chinese Academy of Sciences, Beijing, 100049, People's Republic of China","institution_ids":["https://openalex.org/I4210165038"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101726282","display_name":"Feng Xie","orcid":null},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210134982","display_name":"Institute of Microbiology","ror":"https://ror.org/047yhep71","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210134982"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Feng Xie","raw_affiliation_strings":["Chinese Academy of Sciences Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100190, People's Republic of China","Chinese Academy of Sciences Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100190, People's Republic of China"],"affiliations":[{"raw_affiliation_string":"Chinese Academy of Sciences Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100190, People's Republic of China","institution_ids":["https://openalex.org/I19820366"]},{"raw_affiliation_string":"Chinese Academy of Sciences Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100190, People's Republic of China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210134982"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021898065","display_name":"Ying Zhuo","orcid":"https://orcid.org/0000-0001-8522-0851"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210134982","display_name":"Institute of Microbiology","ror":"https://ror.org/047yhep71","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210134982"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ying Zhuo","raw_affiliation_strings":["Chinese Academy of Sciences Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100190, People's Republic of China","Chinese Academy of Sciences Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100190, People's Republic of China"],"affiliations":[{"raw_affiliation_string":"Chinese Academy of Sciences Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100190, People's Republic of China","institution_ids":["https://openalex.org/I19820366"]},{"raw_affiliation_string":"Chinese Academy of Sciences Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100190, People's Republic of China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210134982"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5064550374","display_name":"Xueting Liu","orcid":"https://orcid.org/0000-0002-1322-8253"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210134982","display_name":"Institute of Microbiology","ror":"https://ror.org/047yhep71","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210134982"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xueting Liu","raw_affiliation_strings":["Chinese Academy of Sciences Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100190, People's Republic of China","Chinese Academy of Sciences Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100190, People's Republic of China"],"affiliations":[{"raw_affiliation_string":"Chinese Academy of Sciences Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100190, People's Republic of China","institution_ids":["https://openalex.org/I19820366"]},{"raw_affiliation_string":"Chinese Academy of Sciences Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100190, People's Republic of China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210134982"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100427821","display_name":"Lixin Zhang","orcid":"https://orcid.org/0000-0003-0894-9520"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210134982","display_name":"Institute of Microbiology","ror":"https://ror.org/047yhep71","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210134982"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Lixin Zhang","raw_affiliation_strings":["Chinese Academy of Sciences Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100190, People's Republic of China","Chinese Academy of Sciences Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100190, People's Republic of China"],"affiliations":[{"raw_affiliation_string":"Chinese Academy of Sciences Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100190, People's Republic of China","institution_ids":["https://openalex.org/I19820366"]},{"raw_affiliation_string":"Chinese Academy of Sciences Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100190, People's Republic of China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210134982"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5053486679"],"corresponding_institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210134982"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":1.0482,"has_fulltext":true,"cited_by_count":14,"citation_normalized_percentile":{"value":0.76382069,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"14","issue":"1","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9970999956130981,"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":0.9970999956130981,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9750000238418579,"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/T10064","display_name":"Complex Network Analysis Techniques","score":0.9629999995231628,"subfield":{"id":"https://openalex.org/subfields/3109","display_name":"Statistical and Nonlinear Physics"},"field":{"id":"https://openalex.org/fields/31","display_name":"Physics and Astronomy"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.8925023078918457},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7702721357345581},{"id":"https://openalex.org/keywords/graph-drawing","display_name":"Graph drawing","score":0.6838676929473877},{"id":"https://openalex.org/keywords/data-visualization","display_name":"Data visualization","score":0.6145119071006775},{"id":"https://openalex.org/keywords/plug-in","display_name":"Plug-in","score":0.5800883769989014},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.48181191086769104},{"id":"https://openalex.org/keywords/animation","display_name":"Animation","score":0.43116825819015503},{"id":"https://openalex.org/keywords/computer-graphics","display_name":"Computer graphics","score":0.42838752269744873},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.426454097032547},{"id":"https://openalex.org/keywords/dimension","display_name":"Dimension (graph theory)","score":0.41806545853614807},{"id":"https://openalex.org/keywords/creative-visualization","display_name":"Creative visualization","score":0.411529541015625},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.34419411420822144},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.321355402469635},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.21954169869422913},{"id":"https://openalex.org/keywords/computer-graphics","display_name":"Computer graphics (images)","score":0.21790826320648193},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.16289162635803223}],"concepts":[{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.8925023078918457},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7702721357345581},{"id":"https://openalex.org/C112953755","wikidata":"https://www.wikidata.org/wiki/Q739462","display_name":"Graph drawing","level":3,"score":0.6838676929473877},{"id":"https://openalex.org/C172367668","wikidata":"https://www.wikidata.org/wiki/Q6504956","display_name":"Data visualization","level":3,"score":0.6145119071006775},{"id":"https://openalex.org/C4924752","wikidata":"https://www.wikidata.org/wiki/Q184148","display_name":"Plug-in","level":2,"score":0.5800883769989014},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.48181191086769104},{"id":"https://openalex.org/C502989409","wikidata":"https://www.wikidata.org/wiki/Q11425","display_name":"Animation","level":2,"score":0.43116825819015503},{"id":"https://openalex.org/C77660652","wikidata":"https://www.wikidata.org/wiki/Q150971","display_name":"Computer graphics","level":2,"score":0.42838752269744873},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.426454097032547},{"id":"https://openalex.org/C33676613","wikidata":"https://www.wikidata.org/wiki/Q13415176","display_name":"Dimension (graph theory)","level":2,"score":0.41806545853614807},{"id":"https://openalex.org/C14669888","wikidata":"https://www.wikidata.org/wiki/Q4014850","display_name":"Creative visualization","level":3,"score":0.411529541015625},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.34419411420822144},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.321355402469635},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.21954169869422913},{"id":"https://openalex.org/C121684516","wikidata":"https://www.wikidata.org/wiki/Q7600677","display_name":"Computer graphics (images)","level":1,"score":0.21790826320648193},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.16289162635803223},{"id":"https://openalex.org/C202444582","wikidata":"https://www.wikidata.org/wiki/Q837863","display_name":"Pure mathematics","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}],"mesh":[],"locations_count":6,"locations":[{"id":"doi:10.1186/1471-2105-14-322","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-14-322","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-14-322","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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmh:oai:europepmc.org:2821679","is_oa":true,"landing_page_url":"http://europepmc.org/articles/PMC3835703","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":"","raw_type":"Text"},{"id":"pmh:oai:null:11420/2003","is_oa":true,"landing_page_url":"https://tubdok.tub.tuhh.de/handle/11420/2003","pdf_url":null,"source":{"id":"https://openalex.org/S4306401751","display_name":"tub.dok (Hamburg University of Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I884043246","host_organization_name":"Hamburg University of Technology","host_organization_lineage":["https://openalex.org/I884043246"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Journal Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:3835703","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3835703","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"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:tubdok.tub.tuhh.de:11420/2003","is_oa":true,"landing_page_url":"http://doi.org/10.15480/882.2000","pdf_url":null,"source":{"id":"https://openalex.org/S4306401751","display_name":"tub.dok (Hamburg University of Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I884043246","host_organization_name":"Hamburg University of Technology","host_organization_lineage":["https://openalex.org/I884043246"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article"},{"id":"doi:10.15480/882.2000","is_oa":true,"landing_page_url":"https://doi.org/10.15480/882.2000","pdf_url":null,"source":{"id":"https://openalex.org/S7407052987","display_name":"TUHH Open Research","issn_l":null,"issn":[],"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":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article-journal"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-14-322","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-14-322","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-14-322","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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","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/G1017391160","display_name":null,"funder_award_id":"31170095","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G1121271761","display_name":null,"funder_award_id":"Program","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2087396116","display_name":null,"funder_award_id":"China","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2802911279","display_name":null,"funder_award_id":"Young","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2969739163","display_name":null,"funder_award_id":"31100075","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3201851071","display_name":null,"funder_award_id":"31000004","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3317480652","display_name":null,"funder_award_id":"Science","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5616351183","display_name":null,"funder_award_id":"00000","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5939423041","display_name":null,"funder_award_id":"Technology","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5994120800","display_name":null,"funder_award_id":"Natural","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G8087965405","display_name":null,"funder_award_id":"81102362","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320332603","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2055402385.pdf","grobid_xml":"https://content.openalex.org/works/W2055402385.grobid-xml"},"referenced_works_count":29,"referenced_works":["https://openalex.org/W1504716054","https://openalex.org/W1916339519","https://openalex.org/W1946371345","https://openalex.org/W1966822396","https://openalex.org/W1971471239","https://openalex.org/W1972960408","https://openalex.org/W1984849380","https://openalex.org/W2000860171","https://openalex.org/W2018227909","https://openalex.org/W2033292629","https://openalex.org/W2090643018","https://openalex.org/W2099645570","https://openalex.org/W2108334394","https://openalex.org/W2112502914","https://openalex.org/W2126696060","https://openalex.org/W2127449417","https://openalex.org/W2132629607","https://openalex.org/W2133405489","https://openalex.org/W2136651963","https://openalex.org/W2141814885","https://openalex.org/W2142749416","https://openalex.org/W2144803530","https://openalex.org/W2145482252","https://openalex.org/W2148803358","https://openalex.org/W2159675211","https://openalex.org/W2160969485","https://openalex.org/W2161546116","https://openalex.org/W2163037296","https://openalex.org/W2167482691"],"related_works":["https://openalex.org/W2167838283","https://openalex.org/W204390364","https://openalex.org/W2066122355","https://openalex.org/W2888682129","https://openalex.org/W1608544587","https://openalex.org/W2105200106","https://openalex.org/W2129488645","https://openalex.org/W2168321020","https://openalex.org/W2816876164","https://openalex.org/W1598188678"],"abstract_inverted_index":{"Abstract":[0],"Background":[1],"The":[2,66],"exponential":[3],"growth":[4],"of":[5,59],"gigantic":[6],"biological":[7],"data":[8,91,103,115],"from":[9],"various":[10],"sources,":[11],"such":[12],"as":[13],"protein-protein":[14],"interaction":[15],"(PPI),":[16],"genome":[17],"sequences":[18],"scaffolding,":[19],"Mass":[20],"spectrometry":[21],"(MS)":[22],"molecular":[23],"networking":[24],"and":[25,35,61,74,94,105,116],"metabolic":[26],"flux,":[27],"demands":[28],"an":[29],"efficient":[30],"way":[31],"for":[32,63],"better":[33],"visualization":[34,41,107],"interpretation":[36],"beyond":[37],"the":[38],"conventional,":[39],"two-dimensional":[40],"tools.":[42],"Results":[43],"We":[44],"developed":[45],"a":[46],"3D":[47],"Cytoscape":[48,54],"Client/Server":[49],"(3DScapeCS)":[50],"plugin,":[51],"which":[52],"adopted":[53],"in":[55,71,82,112],"interpreting":[56],"different":[57],"types":[58],"data,":[60],"UbiGraph":[62],"three-dimensional":[64],"visualization.":[65],"extra":[67],"dimension":[68],"is":[69],"useful":[70],"accommodating,":[72],"visualizing,":[73],"distinguishing":[75],"large-scale":[76],"networks":[77],"with":[78],"multiple":[79],"crossed":[80],"connections":[81],"five":[83],"case":[84],"studies.":[85],"Conclusions":[86],"Evaluation":[87],"on":[88],"several":[89],"experimental":[90],"using":[92],"3DScapeCS":[93],"its":[95,110],"special":[96],"features,":[97],"including":[98],"multilevel":[99],"graph":[100],"layout,":[101],"time-course":[102],"animation,":[104],"parallel":[106],"has":[108],"proven":[109],"usefulness":[111],"visualizing":[113],"complex":[114],"help":[117],"to":[118],"make":[119],"insightful":[120],"conclusions.":[121]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":4}],"updated_date":"2026-04-18T07:56:08.524223","created_date":"2016-06-24T00:00:00"}
