{"id":"https://openalex.org/W2374618574","doi":"https://doi.org/10.1080/21681163.2016.1154483","title":"ProViz: a tool for explorative 3-D visualization and template matching in electron tomograms","display_name":"ProViz: a tool for explorative 3-D visualization and template matching in electron tomograms","publication_year":2016,"publication_date":"2016-05-13","ids":{"openalex":"https://openalex.org/W2374618574","doi":"https://doi.org/10.1080/21681163.2016.1154483","mag":"2374618574"},"language":"en","primary_location":{"id":"doi:10.1080/21681163.2016.1154483","is_oa":false,"landing_page_url":"https://doi.org/10.1080/21681163.2016.1154483","pdf_url":null,"source":{"id":"https://openalex.org/S2764763012","display_name":"Computer Methods in Biomechanics and Biomedical Engineering Imaging & Visualization","issn_l":"2168-1163","issn":["2168-1163","2168-1171"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320547","host_organization_name":"Taylor & Francis","host_organization_lineage":["https://openalex.org/P4310320547"],"host_organization_lineage_names":["Taylor & Francis"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Computer Methods in Biomechanics and Biomedical Engineering: Imaging &amp; Visualization","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"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/A5029413988","display_name":"Lennart Svensson","orcid":"https://orcid.org/0000-0003-0206-9186"},"institutions":[{"id":"https://openalex.org/I123387679","display_name":"Uppsala University","ror":"https://ror.org/048a87296","country_code":"SE","type":"education","lineage":["https://openalex.org/I123387679"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"Lennart Svensson","raw_affiliation_strings":["Centre for Image Analysis, Uppsala University, Uppsala, Sweden"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centre for Image Analysis, Uppsala University, Uppsala, Sweden","institution_ids":["https://openalex.org/I123387679"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071051399","display_name":"Stina Svensson","orcid":"https://orcid.org/0000-0003-2808-6072"},"institutions":[{"id":"https://openalex.org/I4210157068","display_name":"RaySearch Laboratories (Sweden)","ror":"https://ror.org/055bp1561","country_code":"SE","type":"company","lineage":["https://openalex.org/I4210157068"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"Stina Svensson","raw_affiliation_strings":["RaySearch Laboratories, Stockholm, Sweden"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"RaySearch Laboratories, Stockholm, Sweden","institution_ids":["https://openalex.org/I4210157068"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068767069","display_name":"Ingela Nystr\u00f6m","orcid":"https://orcid.org/0000-0001-9739-0364"},"institutions":[{"id":"https://openalex.org/I123387679","display_name":"Uppsala University","ror":"https://ror.org/048a87296","country_code":"SE","type":"education","lineage":["https://openalex.org/I123387679"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"Ingela Nystr\u00f6m","raw_affiliation_strings":["Centre for Image Analysis, Uppsala University, Uppsala, Sweden"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centre for Image Analysis, Uppsala University, Uppsala, Sweden","institution_ids":["https://openalex.org/I123387679"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014745921","display_name":"Fredrik Nysj\u00f6","orcid":"https://orcid.org/0000-0003-2734-8149"},"institutions":[{"id":"https://openalex.org/I123387679","display_name":"Uppsala University","ror":"https://ror.org/048a87296","country_code":"SE","type":"education","lineage":["https://openalex.org/I123387679"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"Fredrik Nysj\u00f6","raw_affiliation_strings":["Centre for Image Analysis, Uppsala University, Uppsala, Sweden"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centre for Image Analysis, Uppsala University, Uppsala, Sweden","institution_ids":["https://openalex.org/I123387679"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045280343","display_name":"Johan Nysj\u00f6","orcid":null},"institutions":[{"id":"https://openalex.org/I123387679","display_name":"Uppsala University","ror":"https://ror.org/048a87296","country_code":"SE","type":"education","lineage":["https://openalex.org/I123387679"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"Johan Nysj\u00f6","raw_affiliation_strings":["Centre for Image Analysis, Uppsala University, Uppsala, Sweden"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centre for Image Analysis, Uppsala University, Uppsala, Sweden","institution_ids":["https://openalex.org/I123387679"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5043264245","display_name":"Aurelie Laloeuf","orcid":null},"institutions":[{"id":"https://openalex.org/I28166907","display_name":"Karolinska Institutet","ror":"https://ror.org/056d84691","country_code":"SE","type":"education","lineage":["https://openalex.org/I28166907"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"Aurelie Laloeuf","raw_affiliation_strings":["Department of Cell and Molecular Biology, Karolinska Institutet, Stockholm, Sweden"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cell and Molecular Biology, Karolinska Institutet, Stockholm, Sweden","institution_ids":["https://openalex.org/I28166907"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5034624283","display_name":"Lianne den Hollander","orcid":"https://orcid.org/0000-0003-0569-7399"},"institutions":[{"id":"https://openalex.org/I28166907","display_name":"Karolinska Institutet","ror":"https://ror.org/056d84691","country_code":"SE","type":"education","lineage":["https://openalex.org/I28166907"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"Lianne den Hollander","raw_affiliation_strings":["Department of Cell and Molecular Biology, Karolinska Institutet, Stockholm, Sweden"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cell and Molecular Biology, Karolinska Institutet, Stockholm, Sweden","institution_ids":["https://openalex.org/I28166907"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103545657","display_name":"Anders Brun","orcid":null},"institutions":[{"id":"https://openalex.org/I123387679","display_name":"Uppsala University","ror":"https://ror.org/048a87296","country_code":"SE","type":"education","lineage":["https://openalex.org/I123387679"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"Anders Brun","raw_affiliation_strings":["Centre for Image Analysis, Uppsala University, Uppsala, Sweden"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centre for Image Analysis, Uppsala University, Uppsala, Sweden","institution_ids":["https://openalex.org/I123387679"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069325199","display_name":"Sergej Masich","orcid":"https://orcid.org/0000-0002-5510-9631"},"institutions":[{"id":"https://openalex.org/I28166907","display_name":"Karolinska Institutet","ror":"https://ror.org/056d84691","country_code":"SE","type":"education","lineage":["https://openalex.org/I28166907"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"Sergej Masich","raw_affiliation_strings":["Department of Cell and Molecular Biology, Karolinska Institutet, Stockholm, Sweden"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cell and Molecular Biology, Karolinska Institutet, Stockholm, Sweden","institution_ids":["https://openalex.org/I28166907"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5060611435","display_name":"Linda Sandblad","orcid":"https://orcid.org/0000-0003-3492-3287"},"institutions":[{"id":"https://openalex.org/I90267481","display_name":"Ume\u00e5 University","ror":"https://ror.org/05kb8h459","country_code":"SE","type":"education","lineage":["https://openalex.org/I90267481"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"Linda Sandblad","raw_affiliation_strings":["Department of Molecular Biology, Ume\u00e5 University, Ume\u00e5, Sweden"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Biology, Ume\u00e5 University, Ume\u00e5, Sweden","institution_ids":["https://openalex.org/I90267481"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111884768","display_name":"Musa Sani","orcid":null},"institutions":[{"id":"https://openalex.org/I4210093054","display_name":"Vironova (Sweden)","ror":"https://ror.org/00qc9cw63","country_code":"SE","type":"company","lineage":["https://openalex.org/I4210093054"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"Musa Sani","raw_affiliation_strings":["Vironova AB, Stockholm, Sweden"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Vironova AB, Stockholm, Sweden","institution_ids":["https://openalex.org/I4210093054"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5075025484","display_name":"Ida\u2010Maria Sintorn","orcid":"https://orcid.org/0000-0002-8307-7411"},"institutions":[{"id":"https://openalex.org/I123387679","display_name":"Uppsala University","ror":"https://ror.org/048a87296","country_code":"SE","type":"education","lineage":["https://openalex.org/I123387679"]},{"id":"https://openalex.org/I4210093054","display_name":"Vironova (Sweden)","ror":"https://ror.org/00qc9cw63","country_code":"SE","type":"company","lineage":["https://openalex.org/I4210093054"]}],"countries":["SE"],"is_corresponding":true,"raw_author_name":"Ida-Maria Sintorn","raw_affiliation_strings":["Centre for Image Analysis, Uppsala University, Uppsala, Sweden","Vironova AB, Stockholm, Sweden"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centre for Image Analysis, Uppsala University, Uppsala, Sweden","institution_ids":["https://openalex.org/I123387679"]},{"raw_affiliation_string":"Vironova AB, Stockholm, Sweden","institution_ids":["https://openalex.org/I4210093054"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5075025484"],"corresponding_institution_ids":["https://openalex.org/I123387679","https://openalex.org/I4210093054"],"apc_list":null,"apc_paid":null,"fwci":0.5904,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.91505043,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":"5","issue":"6","first_page":"446","last_page":"454"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10857","display_name":"Advanced Electron Microscopy Techniques and Applications","score":0.9986000061035156,"subfield":{"id":"https://openalex.org/subfields/1315","display_name":"Structural 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/T10857","display_name":"Advanced Electron Microscopy Techniques and Applications","score":0.9986000061035156,"subfield":{"id":"https://openalex.org/subfields/1315","display_name":"Structural 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":0.9901000261306763,"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/T13650","display_name":"Computational Physics and Python Applications","score":0.9769999980926514,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"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/visualization","display_name":"Visualization","score":0.7629648447036743},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7281143665313721},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5157113671302795},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.4900013506412506},{"id":"https://openalex.org/keywords/template-matching","display_name":"Template matching","score":0.48108264803886414},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.4558819532394409},{"id":"https://openalex.org/keywords/computer-vision","display_name":"Computer vision","score":0.3739718198776245},{"id":"https://openalex.org/keywords/image","display_name":"Image (mathematics)","score":0.14686092734336853}],"concepts":[{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.7629648447036743},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7281143665313721},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5157113671302795},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.4900013506412506},{"id":"https://openalex.org/C158096908","wikidata":"https://www.wikidata.org/wiki/Q3983303","display_name":"Template matching","level":3,"score":0.48108264803886414},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.4558819532394409},{"id":"https://openalex.org/C31972630","wikidata":"https://www.wikidata.org/wiki/Q844240","display_name":"Computer vision","level":1,"score":0.3739718198776245},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.14686092734336853},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1080/21681163.2016.1154483","is_oa":false,"landing_page_url":"https://doi.org/10.1080/21681163.2016.1154483","pdf_url":null,"source":{"id":"https://openalex.org/S2764763012","display_name":"Computer Methods in Biomechanics and Biomedical Engineering Imaging & Visualization","issn_l":"2168-1163","issn":["2168-1163","2168-1171"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320547","host_organization_name":"Taylor & Francis","host_organization_lineage":["https://openalex.org/P4310320547"],"host_organization_lineage_names":["Taylor & Francis"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Computer Methods in Biomechanics and Biomedical Engineering: Imaging &amp; Visualization","raw_type":"journal-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320307330","display_name":"Knowledge Foundation","ror":"https://ror.org/00v64cg28"},{"id":"https://openalex.org/F4320311025","display_name":"V\u00e5rdalstiftelsen","ror":"https://ror.org/00v6ky380"},{"id":"https://openalex.org/F4320321030","display_name":"VINNOVA","ror":"https://ror.org/01kd5m353"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":41,"referenced_works":["https://openalex.org/W9684605","https://openalex.org/W58957280","https://openalex.org/W638526354","https://openalex.org/W1826842517","https://openalex.org/W1964716020","https://openalex.org/W1983041535","https://openalex.org/W1983673980","https://openalex.org/W2004882936","https://openalex.org/W2007107624","https://openalex.org/W2014067266","https://openalex.org/W2014572457","https://openalex.org/W2016113157","https://openalex.org/W2016367858","https://openalex.org/W2018227909","https://openalex.org/W2020615187","https://openalex.org/W2029101220","https://openalex.org/W2029667189","https://openalex.org/W2032219149","https://openalex.org/W2042455841","https://openalex.org/W2045502645","https://openalex.org/W2061171222","https://openalex.org/W2061835758","https://openalex.org/W2069604928","https://openalex.org/W2069920107","https://openalex.org/W2070571659","https://openalex.org/W2072973641","https://openalex.org/W2079123529","https://openalex.org/W2084318492","https://openalex.org/W2093017347","https://openalex.org/W2095482495","https://openalex.org/W2112087820","https://openalex.org/W2112756815","https://openalex.org/W2119535256","https://openalex.org/W2126560733","https://openalex.org/W2128897252","https://openalex.org/W2132629607","https://openalex.org/W2142748315","https://openalex.org/W2144046235","https://openalex.org/W2150008490","https://openalex.org/W2156994097","https://openalex.org/W2161227418"],"related_works":["https://openalex.org/W2068608913","https://openalex.org/W3124914020","https://openalex.org/W2141033859","https://openalex.org/W2156434174","https://openalex.org/W2071701083","https://openalex.org/W2383687187","https://openalex.org/W2081517010","https://openalex.org/W2121496884","https://openalex.org/W2387910809","https://openalex.org/W2294221496"],"abstract_inverted_index":{"Visual":[0],"understanding":[1],"is":[2,198],"a":[3,87,177,201],"key":[4],"aspect":[5],"when":[6],"studying":[7],"electron":[8,36,64],"tomography":[9],"data-sets,":[10],"aside":[11],"quantitative":[12],"assessments":[13],"such":[14],"as":[15,80,107,109],"registration":[16],"of":[17,38,63,92,163],"high-resolution":[18],"structures.":[19],"We":[20],"here":[21],"present":[22],"the":[23,75,93,155,180],"free":[24],"software":[25,43,73],"tool":[26,85],"ProViz":[27,42,70,164],"(Protein":[28],"Visualization)":[29],"for":[30,56,86],"visualisation":[31,60,103,159],"and":[32,46,53,58,61,78,83,90,113,121,138,147,152,161,179,187],"template":[33,145,196],"matching":[34,146,197],"in":[35,74,98,175,185,192],"tomograms":[37,65],"biological":[39,169],"samples.":[40],"The":[41,158,194],"contains":[44],"methods":[45],"tools":[47,148],"which":[48],"we":[49],"have":[50],"developed,":[51],"adapted":[52],"computationally":[54,143],"optimised":[55,144],"easy":[57,82],"intuitive":[59],"analysis":[62],"with":[66,128,190],"low":[67],"signal-to-noise":[68],"ratio.":[69],"complements":[71],"existing":[72],"application":[76],"field":[77],"serves":[79],"an":[81],"convenient":[84],"first":[88],"assessment":[89],"screening":[91],"tomograms.":[94],"It":[95],"provides":[96],"enhancements":[97],"three":[99],"areas:":[100],"(1)":[101],"improved":[102],"that":[104],"makes":[105],"connections":[106,183],"well":[108],"intensity":[110],"differences":[111],"between":[112],"within":[114],"objects":[115],"or":[116],"structures":[117,174],"easier":[118],"to":[119,149],"see":[120],"interpret,":[122],"(2)":[123],"interactive":[124],"transfer":[125],"function":[126,140],"editing":[127],"direct":[129],"visual":[130],"result":[131],"feedback":[132],"using":[133],"both":[134],"piecewise":[135],"linear":[136],"functions":[137],"Gaussian":[139],"elements,":[141],"(3)":[142],"visually":[150],"assess":[151],"interactively":[153],"explore":[154],"correlation":[156],"results.":[157],"capabilities":[160],"features":[162],"are":[165],"demonstrated":[166,199],"on":[167,200],"various":[168],"volume":[170],"data-sets:":[171],"bacterial":[172],"filament":[173],"vitro,":[176],"desmosome":[178],"transmembrane":[181],"cadherin":[182],"therein":[184],"situ,":[186],"liposomes":[188],"filled":[189],"doxorubicin":[191],"solution.":[193],"explorative":[195],"synthetic":[202],"IgG":[203],"data-set.":[204]},"counts_by_year":[{"year":2016,"cited_by_count":1}],"updated_date":"2026-07-29T09:40:50.615796","created_date":"2025-10-10T00:00:00"}
