{"id":"https://openalex.org/W2101036357","doi":"https://doi.org/10.1186/1471-2105-14-185","title":"bioWeb3D: an online webGL 3D data visualisation tool","display_name":"bioWeb3D: an online webGL 3D data visualisation tool","publication_year":2013,"publication_date":"2013-06-07","ids":{"openalex":"https://openalex.org/W2101036357","doi":"https://doi.org/10.1186/1471-2105-14-185","mag":"2101036357","pmid":"https://pubmed.ncbi.nlm.nih.gov/23758781"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-14-185","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-14-185","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-14-185","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/10.1186/1471-2105-14-185","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5069916809","display_name":"Jean\u2010Baptiste Pettit","orcid":null},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Jean-Baptiste Pettit","raw_affiliation_strings":["EMBL-EBI, European Molecular Biology Laboratory - European Bioinformatics Institute, CB10 1SD, Cambridge, UK. jbpettit@ebi.ac.uk","EMBL-EBI, European Molecular Biology Laboratory - European Bioinformatics Institute, CB10 1SD, Cambridge, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"EMBL-EBI, European Molecular Biology Laboratory - European Bioinformatics Institute, CB10 1SD, Cambridge, UK. jbpettit@ebi.ac.uk","institution_ids":["https://openalex.org/I1303153112"]},{"raw_affiliation_string":"EMBL-EBI, European Molecular Biology Laboratory - European Bioinformatics Institute, CB10 1SD, Cambridge, UK","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5042376614","display_name":"John C. Marioni","orcid":"https://orcid.org/0000-0001-9092-0852"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"John C Marioni","raw_affiliation_strings":["EMBL-EBI, European Molecular Biology Laboratory, European Bioinformatics Institute, CB10 1SD, Cambridge, UK","EMBL-EBI, European Molecular Biology Laboratory, European Bioinformatics Institute, Cambridge, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"EMBL-EBI, European Molecular Biology Laboratory, European Bioinformatics Institute, CB10 1SD, Cambridge, UK","institution_ids":["https://openalex.org/I1303153112"]},{"raw_affiliation_string":"EMBL-EBI, European Molecular Biology Laboratory, European Bioinformatics Institute, Cambridge, UK","institution_ids":["https://openalex.org/I1303153112"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5069916809"],"corresponding_institution_ids":["https://openalex.org/I1303153112"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":2.5428,"has_fulltext":true,"cited_by_count":31,"citation_normalized_percentile":{"value":0.89764769,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":100},"biblio":{"volume":"14","issue":"1","first_page":"185","last_page":"185"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.3296999931335449,"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/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.3296999931335449,"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.11349999904632568,"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"}},{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.06639999896287918,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.849989652633667},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.7445944547653198},{"id":"https://openalex.org/keywords/html5","display_name":"HTML5","score":0.7049531936645508},{"id":"https://openalex.org/keywords/json","display_name":"JSON","score":0.6975799202919006},{"id":"https://openalex.org/keywords/javascript","display_name":"JavaScript","score":0.6596674919128418},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.580514132976532},{"id":"https://openalex.org/keywords/bottleneck","display_name":"Bottleneck","score":0.5241599082946777},{"id":"https://openalex.org/keywords/representation","display_name":"Representation (politics)","score":0.5186073780059814},{"id":"https://openalex.org/keywords/external-data-representation","display_name":"External Data Representation","score":0.5013339519500732},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.4845368266105652},{"id":"https://openalex.org/keywords/xml","display_name":"XML","score":0.46206578612327576},{"id":"https://openalex.org/keywords/data-visualization","display_name":"Data visualization","score":0.4544435441493988},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.4397006034851074},{"id":"https://openalex.org/keywords/web-application","display_name":"Web application","score":0.4212341904640198},{"id":"https://openalex.org/keywords/human\u2013computer-interaction","display_name":"Human\u2013computer interaction","score":0.36604273319244385},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.33505779504776},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.23871707916259766},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.17521780729293823},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.15750059485435486}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.849989652633667},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.7445944547653198},{"id":"https://openalex.org/C84063617","wikidata":"https://www.wikidata.org/wiki/Q2053","display_name":"HTML5","level":2,"score":0.7049531936645508},{"id":"https://openalex.org/C2780416260","wikidata":"https://www.wikidata.org/wiki/Q2063","display_name":"JSON","level":2,"score":0.6975799202919006},{"id":"https://openalex.org/C544833334","wikidata":"https://www.wikidata.org/wiki/Q2005","display_name":"JavaScript","level":2,"score":0.6596674919128418},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.580514132976532},{"id":"https://openalex.org/C2780513914","wikidata":"https://www.wikidata.org/wiki/Q18210350","display_name":"Bottleneck","level":2,"score":0.5241599082946777},{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.5186073780059814},{"id":"https://openalex.org/C116409475","wikidata":"https://www.wikidata.org/wiki/Q1385056","display_name":"External Data Representation","level":2,"score":0.5013339519500732},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.4845368266105652},{"id":"https://openalex.org/C8797682","wikidata":"https://www.wikidata.org/wiki/Q2115","display_name":"XML","level":2,"score":0.46206578612327576},{"id":"https://openalex.org/C172367668","wikidata":"https://www.wikidata.org/wiki/Q6504956","display_name":"Data visualization","level":3,"score":0.4544435441493988},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.4397006034851074},{"id":"https://openalex.org/C118643609","wikidata":"https://www.wikidata.org/wiki/Q189210","display_name":"Web application","level":2,"score":0.4212341904640198},{"id":"https://openalex.org/C107457646","wikidata":"https://www.wikidata.org/wiki/Q207434","display_name":"Human\u2013computer interaction","level":1,"score":0.36604273319244385},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.33505779504776},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.23871707916259766},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.17521780729293823},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.15750059485435486},{"id":"https://openalex.org/C94625758","wikidata":"https://www.wikidata.org/wiki/Q7163","display_name":"Politics","level":2,"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/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0},{"id":"https://openalex.org/C149635348","wikidata":"https://www.wikidata.org/wiki/Q193040","display_name":"Embedded system","level":1,"score":0.0},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","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}],"mesh":[{"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":"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":"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":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D021621","descriptor_name":"Imaging, Three-Dimensional","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1186/1471-2105-14-185","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-14-185","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-14-185","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:23758781","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23758781","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:europepmc.org:2705423","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3710502","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:10.1186/1471-2105-14-185","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-14-185","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-14-185","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":[{"display_name":"Industry, innovation and infrastructure","score":0.4300000071525574,"id":"https://metadata.un.org/sdg/9"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320314023","display_name":"European Molecular Biology Laboratory","ror":"https://ror.org/050589e39"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2101036357.pdf","grobid_xml":"https://content.openalex.org/works/W2101036357.grobid-xml"},"referenced_works_count":11,"referenced_works":["https://openalex.org/W79651097","https://openalex.org/W1552632109","https://openalex.org/W1572961809","https://openalex.org/W1971471239","https://openalex.org/W2014926287","https://openalex.org/W2018227909","https://openalex.org/W2087111048","https://openalex.org/W2123491442","https://openalex.org/W2137522673","https://openalex.org/W2150394469","https://openalex.org/W2159675211"],"related_works":["https://openalex.org/W4250821095","https://openalex.org/W2535165035","https://openalex.org/W4301217393","https://openalex.org/W2267058868","https://openalex.org/W2922064259","https://openalex.org/W2742949799","https://openalex.org/W4390142841","https://openalex.org/W2484907013","https://openalex.org/W2799210984","https://openalex.org/W2606134820"],"abstract_inverted_index":{"BACKGROUND:":[0],"Data":[1],"visualization":[2],"is":[3,24,149],"critical":[4],"for":[5,19,27],"interpreting":[6],"biological":[7,45],"data.":[8],"However,":[9],"in":[10,102,139],"practice":[11],"it":[12],"can":[13,36,123],"prove":[14],"to":[15,41,59,73,76,130,152],"be":[16,124],"a":[17,115,140,146,163],"bottleneck":[18],"non":[20],"trained":[21],"researchers;":[22],"this":[23],"especially":[25],"true":[26],"three":[28,84],"dimensional":[29,85],"(3D)":[30],"data":[31,89],"representation.":[32],"Whilst":[33],"existing":[34],"software":[35],"provide":[37,145],"all":[38],"necessary":[39],"functionalities":[40],"represent":[42],"and":[43,57,78,82,126,165],"manipulate":[44],"3D":[46,67,136,156,171],"datasets,":[47],"very":[48],"few":[49],"are":[50],"easily":[51,79],"accessible":[52,58],"(browser":[53],"based),":[54],"cross":[55],"platform":[56],"non-expert":[60],"users.":[61],"RESULTS:":[62],"An":[63],"online":[64],"HTML5/WebGL":[65],"based":[66],"visualisation":[68,108],"tool":[69],"has":[70],"been":[71],"developed":[72],"allow":[74],"biologists":[75],"quickly":[77],"view":[80],"interactive":[81],"customizable":[83],"representations":[86],"of":[87,94,109,168],"their":[88],"along":[90],"with":[91,154],"multiple":[92,110],"layers":[93],"information.":[95],"Using":[96,134],"the":[97,106],"WebGL":[98],"library":[99],"Three.js":[100],"written":[101],"Javascript,":[103],"bioWeb3D":[104],"allows":[105],"simultaneous":[107],"large":[111,170],"datasets":[112],"inputted":[113],"via":[114],"simple":[116],"JSON,":[117],"XML":[118],"or":[119],"CSV":[120],"file,":[121],"which":[122],"read":[125],"analysed":[127],"locally":[128],"thanks":[129],"HTML5":[131],"capabilities.":[132],"CONCLUSIONS:":[133],"basic":[135],"representation":[137,157,167],"techniques":[138],"technologically":[141],"innovative":[142],"context,":[143],"we":[144],"program":[147],"that":[148,160],"not":[150],"intended":[151],"compete":[153],"professional":[155],"software,":[158],"but":[159],"instead":[161],"enables":[162],"quick":[164],"intuitive":[166],"reasonably":[169],"datasets.":[172]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":5},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":13}],"updated_date":"2026-04-29T09:16:38.111599","created_date":"2025-10-10T00:00:00"}
