{"id":"https://openalex.org/W1963821710","doi":"https://doi.org/10.1109/biovis.2012.6378601","title":"Implicit surfaces for interactive graph based cavity analysis of molecular simulations","display_name":"Implicit surfaces for interactive graph based cavity analysis of molecular simulations","publication_year":2012,"publication_date":"2012-10-01","ids":{"openalex":"https://openalex.org/W1963821710","doi":"https://doi.org/10.1109/biovis.2012.6378601","mag":"1963821710"},"language":"en","primary_location":{"id":"doi:10.1109/biovis.2012.6378601","is_oa":false,"landing_page_url":"https://doi.org/10.1109/biovis.2012.6378601","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2012 IEEE Symposium on Biological Data Visualization (BioVis)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5025345988","display_name":"J\u00falius Parulek","orcid":null},"institutions":[{"id":"https://openalex.org/I4432739","display_name":"University of Bergen","ror":"https://ror.org/03zga2b32","country_code":"NO","type":"education","lineage":["https://openalex.org/I4432739"]}],"countries":["NO"],"is_corresponding":true,"raw_author_name":"Julius Parulek","raw_affiliation_strings":["University of Bergen, Norway","University of Bergen"],"affiliations":[{"raw_affiliation_string":"University of Bergen, Norway","institution_ids":["https://openalex.org/I4432739"]},{"raw_affiliation_string":"University of Bergen","institution_ids":["https://openalex.org/I4432739"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065040154","display_name":"\u00c7a\u011fatay Turkay","orcid":"https://orcid.org/0000-0001-6788-251X"},"institutions":[{"id":"https://openalex.org/I4432739","display_name":"University of Bergen","ror":"https://ror.org/03zga2b32","country_code":"NO","type":"education","lineage":["https://openalex.org/I4432739"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"Cagatay Turkay","raw_affiliation_strings":["University of Bergen, Norway","University of Bergen"],"affiliations":[{"raw_affiliation_string":"University of Bergen, Norway","institution_ids":["https://openalex.org/I4432739"]},{"raw_affiliation_string":"University of Bergen","institution_ids":["https://openalex.org/I4432739"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090274388","display_name":"Nathalie Reuter","orcid":"https://orcid.org/0000-0002-3649-7675"},"institutions":[{"id":"https://openalex.org/I4432739","display_name":"University of Bergen","ror":"https://ror.org/03zga2b32","country_code":"NO","type":"education","lineage":["https://openalex.org/I4432739"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"Nathalie Reuter","raw_affiliation_strings":["University of Bergen, Norway","University of Bergen"],"affiliations":[{"raw_affiliation_string":"University of Bergen, Norway","institution_ids":["https://openalex.org/I4432739"]},{"raw_affiliation_string":"University of Bergen","institution_ids":["https://openalex.org/I4432739"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5022294742","display_name":"Ivan Viola","orcid":"https://orcid.org/0000-0003-4248-6574"},"institutions":[{"id":"https://openalex.org/I4432739","display_name":"University of Bergen","ror":"https://ror.org/03zga2b32","country_code":"NO","type":"education","lineage":["https://openalex.org/I4432739"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"Ivan Viola","raw_affiliation_strings":["University of Bergen, Norway","University of Bergen"],"affiliations":[{"raw_affiliation_string":"University of Bergen, Norway","institution_ids":["https://openalex.org/I4432739"]},{"raw_affiliation_string":"University of Bergen","institution_ids":["https://openalex.org/I4432739"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5025345988"],"corresponding_institution_ids":["https://openalex.org/I4432739"],"apc_list":null,"apc_paid":null,"fwci":3.0548,"has_fulltext":false,"cited_by_count":22,"citation_normalized_percentile":{"value":0.92065794,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":null,"issue":null,"first_page":"115","last_page":"122"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10799","display_name":"Data Visualization and Analytics","score":0.9997000098228455,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10799","display_name":"Data Visualization and Analytics","score":0.9997000098228455,"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/T12536","display_name":"Topological and Geometric Data Analysis","score":0.9853000044822693,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9634000062942505,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.735417902469635},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.6577149033546448},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.5474919676780701},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.538332462310791},{"id":"https://openalex.org/keywords/representation","display_name":"Representation (politics)","score":0.526975154876709},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.49854016304016113},{"id":"https://openalex.org/keywords/biological-system","display_name":"Biological system","score":0.3310230076313019},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.22584420442581177}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.735417902469635},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.6577149033546448},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.5474919676780701},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.538332462310791},{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.526975154876709},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.49854016304016113},{"id":"https://openalex.org/C186060115","wikidata":"https://www.wikidata.org/wiki/Q30336093","display_name":"Biological system","level":1,"score":0.3310230076313019},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.22584420442581177},{"id":"https://openalex.org/C94625758","wikidata":"https://www.wikidata.org/wiki/Q7163","display_name":"Politics","level":2,"score":0.0},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0},{"id":"https://openalex.org/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/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1109/biovis.2012.6378601","is_oa":false,"landing_page_url":"https://doi.org/10.1109/biovis.2012.6378601","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2012 IEEE Symposium on Biological Data Visualization (BioVis)","raw_type":"proceedings-article"},{"id":"pmh:oai:openaccess.city.ac.uk:3615","is_oa":false,"landing_page_url":"https://openaccess.city.ac.uk/view/creators_id/cagatay=2Eturkay=2E1.html>,","pdf_url":null,"source":{"id":"https://openalex.org/S4306401940","display_name":"City Research Online (City University London)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I180825142","host_organization_name":"City, University of London","host_organization_lineage":["https://openalex.org/I180825142"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"PeerReviewed"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.714.8315","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.714.8315","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://www.ii.uib.no/vis/publications/pdfs/Parulek12Implicit.pdf","raw_type":"text"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":37,"referenced_works":["https://openalex.org/W1684305122","https://openalex.org/W1753524162","https://openalex.org/W1963616378","https://openalex.org/W1989519540","https://openalex.org/W1993244675","https://openalex.org/W2004360551","https://openalex.org/W2006930542","https://openalex.org/W2022993040","https://openalex.org/W2023734581","https://openalex.org/W2028753963","https://openalex.org/W2029667189","https://openalex.org/W2034542871","https://openalex.org/W2039181331","https://openalex.org/W2043901383","https://openalex.org/W2058207803","https://openalex.org/W2063831812","https://openalex.org/W2067963143","https://openalex.org/W2098519781","https://openalex.org/W2104615170","https://openalex.org/W2105902442","https://openalex.org/W2109167597","https://openalex.org/W2114566476","https://openalex.org/W2128934301","https://openalex.org/W2131080603","https://openalex.org/W2141742950","https://openalex.org/W2152167878","https://openalex.org/W2154396405","https://openalex.org/W2169113748","https://openalex.org/W2169242540","https://openalex.org/W2177731497","https://openalex.org/W2244686166","https://openalex.org/W2284871597","https://openalex.org/W2486096428","https://openalex.org/W4233857083","https://openalex.org/W4254950616","https://openalex.org/W4255306344","https://openalex.org/W6695940561"],"related_works":["https://openalex.org/W2068608913","https://openalex.org/W3124914020","https://openalex.org/W2141033859","https://openalex.org/W2077542787","https://openalex.org/W2156434174","https://openalex.org/W2071701083","https://openalex.org/W2383687187","https://openalex.org/W2070401501","https://openalex.org/W2121496884","https://openalex.org/W2387910809"],"abstract_inverted_index":{"Molecular":[0],"surfaces":[1],"provide":[2],"a":[3,31,36,108,122],"suitable":[4],"way":[5],"to":[6,9,30,72,80,93,120],"analyze":[7],"and":[8,13,51,77],"study":[10,125],"the":[11,61,64,99,102],"evolution":[12],"interaction":[14],"of":[15,25,28,57,63,101,110],"molecules.":[16],"The":[17],"analysis":[18],"is":[19,40],"often":[20],"concerned":[21],"with":[22],"visual":[23],"identification":[24],"binding":[26,49],"sites":[27,50,59],"ligands":[29],"host":[32],"macromolecule.":[33],"We":[34,66,105],"present":[35],"novel":[37],"technique":[38],"that":[39,117],"based":[41],"on":[42,126],"implicit":[43,68],"representation,":[44],"which":[45],"extracts":[46],"all":[47],"potential":[48,74],"allows":[52],"an":[53],"advanced":[54],"3D":[55],"visualization":[56],"these":[58,96],"in":[60,98],"context":[62,100],"molecule.":[65],"utilize":[67],"function":[69],"sampling":[70],"strategy":[71],"obtain":[73],"cavity":[75,83],"samples":[76],"graph":[78,115],"algorithms":[79],"extract":[81],"arbitrary":[82],"components":[84],"defined":[85],"by":[86],"simple":[87],"graphs.":[88,128],"Moreover,":[89],"we":[90],"propose":[91],"how":[92],"interactively":[94],"visualize":[95],"graphs":[97],"molecular":[103],"surface.":[104],"also":[106],"introduce":[107],"system":[109],"linked":[111],"views":[112],"depicting":[113],"various":[114],"parameters":[116],"are":[118],"used":[119],"perform":[121],"more":[123],"elaborative":[124],"created":[127]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2020,"cited_by_count":2},{"year":2017,"cited_by_count":3},{"year":2016,"cited_by_count":4},{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":4},{"year":2013,"cited_by_count":4}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
