{"id":"https://openalex.org/W2624762677","doi":"https://doi.org/10.2312/eurovisshort.20171146","title":"Molecular Visualization of Computational Biology Data: A Survey of Surveys","display_name":"Molecular Visualization of Computational Biology Data: A Survey of Surveys","publication_year":2017,"publication_date":"2017-01-01","ids":{"openalex":"https://openalex.org/W2624762677","doi":"https://doi.org/10.2312/eurovisshort.20171146","mag":"2624762677"},"language":"en","primary_location":{"id":"mag:2624762677","is_oa":true,"landing_page_url":"https://hal.science/hal-01644549","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"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":"HAL (Le Centre pour la Communication Scientifique Directe)","raw_type":null},"type":"preprint","indexed_in":["datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://hal.science/hal-01644549","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5041196844","display_name":"Naif Khalaf Alharbi","orcid":"https://orcid.org/0000-0002-6049-3383"},"institutions":[{"id":"https://openalex.org/I39586589","display_name":"Swansea University","ror":"https://ror.org/053fq8t95","country_code":"GB","type":"education","lineage":["https://openalex.org/I39586589"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Alharbi, Naif","raw_affiliation_strings":["Department of Computer Science [Swansea] (Department of Computer Science Swansea University Singleton Park Swansea SA2 8PP United Kingdom - United Kingdom)"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science [Swansea] (Department of Computer Science Swansea University Singleton Park Swansea SA2 8PP United Kingdom - United Kingdom)","institution_ids":["https://openalex.org/I39586589"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101802168","display_name":"Mohammed Alharbi","orcid":null},"institutions":[{"id":"https://openalex.org/I39586589","display_name":"Swansea University","ror":"https://ror.org/053fq8t95","country_code":"GB","type":"education","lineage":["https://openalex.org/I39586589"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Alharbi, Mohammad","raw_affiliation_strings":["Department of Computer Science [Swansea] (Department of Computer Science Swansea University Singleton Park Swansea SA2 8PP United Kingdom - United Kingdom)"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science [Swansea] (Department of Computer Science Swansea University Singleton Park Swansea SA2 8PP United Kingdom - United Kingdom)","institution_ids":["https://openalex.org/I39586589"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5060759028","display_name":"Xavier Martinez","orcid":"https://orcid.org/0000-0003-2630-6393"},"institutions":[{"id":"https://openalex.org/I4210094297","display_name":"Laboratoire de Biochimie Th\u00e9orique","ror":"https://ror.org/00nvjgv40","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I204730241","https://openalex.org/I4210094297","https://openalex.org/I4210128300"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Martinez, Xavier","raw_affiliation_strings":["LBT (UPR_9080) - Laboratoire de biochimie th\u00e9orique [Paris] (13 Rue Pierre et Marie Curie 75005 PARIS - France)"],"affiliations":[{"raw_affiliation_string":"LBT (UPR_9080) - Laboratoire de biochimie th\u00e9orique [Paris] (13 Rue Pierre et Marie Curie 75005 PARIS - France)","institution_ids":["https://openalex.org/I4210094297"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003476748","display_name":"Michael Krone","orcid":"https://orcid.org/0000-0002-1445-7568"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Krone, Michael","raw_affiliation_strings":["Visualization Research Centre (Germany)"],"affiliations":[{"raw_affiliation_string":"Visualization Research Centre (Germany)","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033139813","display_name":"Alexander Rose","orcid":"https://orcid.org/0000-0002-0893-5551"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Rose, Alexander S.","raw_affiliation_strings":["UC San Diego - University of California [San Diego] (UCSD, 9500 Gilman Dr., La Jolla, CA 92093 USA - United States)"],"affiliations":[{"raw_affiliation_string":"UC San Diego - University of California [San Diego] (UCSD, 9500 Gilman Dr., La Jolla, CA 92093 USA - United States)","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016139627","display_name":"Marc Baaden","orcid":"https://orcid.org/0000-0001-6472-0486"},"institutions":[{"id":"https://openalex.org/I4210094297","display_name":"Laboratoire de Biochimie Th\u00e9orique","ror":"https://ror.org/00nvjgv40","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I204730241","https://openalex.org/I4210094297","https://openalex.org/I4210128300"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Baaden, Marc","raw_affiliation_strings":["LBT (UPR_9080) - Laboratoire de biochimie th\u00e9orique [Paris] (13 Rue Pierre et Marie Curie 75005 PARIS - France)"],"affiliations":[{"raw_affiliation_string":"LBT (UPR_9080) - Laboratoire de biochimie th\u00e9orique [Paris] (13 Rue Pierre et Marie Curie 75005 PARIS - France)","institution_ids":["https://openalex.org/I4210094297"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5031570473","display_name":"Robert S. Laramee","orcid":"https://orcid.org/0000-0002-3874-6145"},"institutions":[{"id":"https://openalex.org/I39586589","display_name":"Swansea University","ror":"https://ror.org/053fq8t95","country_code":"GB","type":"education","lineage":["https://openalex.org/I39586589"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Laramee, Robert S.","raw_affiliation_strings":["Department of Computer Science [Swansea] (Department of Computer Science Swansea University Singleton Park Swansea SA2 8PP United Kingdom - United Kingdom)"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science [Swansea] (Department of Computer Science Swansea University Singleton Park Swansea SA2 8PP United Kingdom - United Kingdom)","institution_ids":["https://openalex.org/I39586589"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5082706216","display_name":"Matthieu Chavent","orcid":"https://orcid.org/0000-0003-4524-4773"},"institutions":[{"id":"https://openalex.org/I4210099749","display_name":"Institut de Pharmacologie et de Biologie Structurale","ror":"https://ror.org/016zvc994","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I134560555","https://openalex.org/I4210096427","https://openalex.org/I4210099749","https://openalex.org/I4412460029"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Chavent, Matthieu","raw_affiliation_strings":["Department of Biochemistry [Oxford] (South Parks Road\r\nOxford OX1 3QU\r\n - United Kingdom)","IPBS - Institut de pharmacologie et de biologie structurale (205 Route de Narbonne 31077 TOULOUSE CEDEX 4 - France)"],"affiliations":[{"raw_affiliation_string":"Department of Biochemistry [Oxford] (South Parks Road\r\nOxford OX1 3QU\r\n - United Kingdom)","institution_ids":[]},{"raw_affiliation_string":"IPBS - Institut de pharmacologie et de biologie structurale (205 Route de Narbonne 31077 TOULOUSE CEDEX 4 - France)","institution_ids":["https://openalex.org/I4210099749"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5041196844"],"corresponding_institution_ids":["https://openalex.org/I39586589"],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":12,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.9603999853134155,"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":0.9603999853134155,"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":0.9466000199317932,"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/visualization","display_name":"Visualization","score":0.5517449975013733},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.5305749773979187},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.46553507447242737},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.42585426568984985},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.31163284182548523},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.23527050018310547}],"concepts":[{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.5517449975013733},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.5305749773979187},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.46553507447242737},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.42585426568984985},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.31163284182548523},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.23527050018310547}],"mesh":[],"locations_count":2,"locations":[{"id":"mag:2624762677","is_oa":true,"landing_page_url":"https://hal.science/hal-01644549","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"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":"HAL (Le Centre pour la Communication Scientifique Directe)","raw_type":null},{"id":"doi:10.2312/eurovisshort.20171146","is_oa":true,"landing_page_url":"https://doi.org/10.2312/eurovisshort.20171146","pdf_url":null,"source":{"id":"https://openalex.org/S7407052899","display_name":"Eurographics","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"}],"best_oa_location":{"id":"mag:2624762677","is_oa":true,"landing_page_url":"https://hal.science/hal-01644549","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"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":"HAL (Le Centre pour la Communication Scientifique Directe)","raw_type":null},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W4391375266","https://openalex.org/W2082860237","https://openalex.org/W2119695867","https://openalex.org/W2130076355","https://openalex.org/W1990804418","https://openalex.org/W1993764875","https://openalex.org/W2046158694","https://openalex.org/W2788277189","https://openalex.org/W2013243191"],"abstract_inverted_index":{"Visualizations":[0],"for":[1,7],"computational":[2,16,61,74,123],"biology":[3,17,75,124],"have":[4,24],"been":[5],"developing":[6],"over":[8],"50":[9],"years.":[10],"With":[11],"recent":[12],"advances":[13,28],"in":[14,29,64,119,132],"both":[15,43,90,107],"and":[18,60,76,116,121,141],"computer":[19],"graphics":[20],"techniques,":[21],"these":[22,82],"fields":[23,44],"witnessed":[25],"rapid":[26],"technological":[27],"the":[30,36,55,69,112,134],"last":[31],"decade.":[32],"Thus,":[33],"coping":[34],"with":[35],"large":[37],"number":[38],"of":[39,58,73,96,114,138],"scientific":[40],"articles":[41],"from":[42,89,106],"is":[45],"a":[46,52,94,128],"challenging":[47],"task.":[48],"Furthermore,":[49],"there":[50],"remains":[51],"gap":[53],"between":[54,104],"two":[56],"communities":[57],"visualization":[59,77,137],"biology,":[62],"resulting":[63],"additional":[65],"challenges":[66,83,118],"to":[67,80,99],"bridge":[68],"divide.":[70],"A":[71],"team":[72],"scientists":[78],"attempts":[79],"address":[81],"by":[84],"presenting":[85],"unified":[86],"state-of-the-art":[87],"reviews":[88],"communities.":[91,108],"We":[92],"apply":[93],"variety":[95],"data-driven":[97],"analysis":[98],"highlight":[100],"links":[101],"or":[102],"differences":[103],"studies":[105],"This":[109],"approach":[110],"facilitates":[111],"identification":[113],"present":[115],"future":[117],"visualizing":[120],"analyzing":[122],"data.":[125],"It":[126],"offers":[127],"distinctive":[129],"step":[130],"forward":[131],"managing":[133],"literature":[135],"on":[136],"molecular":[139],"dynamics":[140],"related":[142],"simulation":[143],"approaches.":[144]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":2}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
