{"id":"https://openalex.org/W2021689070","doi":"https://doi.org/10.1109/pacificvis.2010.5429609","title":"Caleydo: Design and evaluation of a visual analysis framework for gene expression data in its biological context","display_name":"Caleydo: Design and evaluation of a visual analysis framework for gene expression data in its biological context","publication_year":2010,"publication_date":"2010-03-01","ids":{"openalex":"https://openalex.org/W2021689070","doi":"https://doi.org/10.1109/pacificvis.2010.5429609","mag":"2021689070"},"language":"en","primary_location":{"id":"doi:10.1109/pacificvis.2010.5429609","is_oa":false,"landing_page_url":"https://doi.org/10.1109/pacificvis.2010.5429609","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2010 IEEE Pacific Visualization Symposium (PacificVis)","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/A5031057530","display_name":"Alexander Lex","orcid":"https://orcid.org/0000-0001-6930-5468"},"institutions":[{"id":"https://openalex.org/I4092182","display_name":"Graz University of Technology","ror":"https://ror.org/00d7xrm67","country_code":"AT","type":"education","lineage":["https://openalex.org/I4092182"]}],"countries":["AT"],"is_corresponding":true,"raw_author_name":"Alexander Lex","raw_affiliation_strings":["Graz University of Technology, Austria","Graz Univ. of Technology,   Austria"],"affiliations":[{"raw_affiliation_string":"Graz University of Technology, Austria","institution_ids":["https://openalex.org/I4092182"]},{"raw_affiliation_string":"Graz Univ. of Technology,   Austria","institution_ids":["https://openalex.org/I4092182"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042080340","display_name":"Marc Streit","orcid":"https://orcid.org/0000-0001-9186-2092"},"institutions":[{"id":"https://openalex.org/I4092182","display_name":"Graz University of Technology","ror":"https://ror.org/00d7xrm67","country_code":"AT","type":"education","lineage":["https://openalex.org/I4092182"]}],"countries":["AT"],"is_corresponding":false,"raw_author_name":"Marc Streit","raw_affiliation_strings":["Graz University of Technology, Austria","Graz Univ. of Technology,   Austria"],"affiliations":[{"raw_affiliation_string":"Graz University of Technology, Austria","institution_ids":["https://openalex.org/I4092182"]},{"raw_affiliation_string":"Graz Univ. of Technology,   Austria","institution_ids":["https://openalex.org/I4092182"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035303241","display_name":"Ernst Kruijff","orcid":"https://orcid.org/0000-0003-1625-0955"},"institutions":[{"id":"https://openalex.org/I4092182","display_name":"Graz University of Technology","ror":"https://ror.org/00d7xrm67","country_code":"AT","type":"education","lineage":["https://openalex.org/I4092182"]}],"countries":["AT"],"is_corresponding":false,"raw_author_name":"Ernst Kruijff","raw_affiliation_strings":["Graz University of Technology, Austria","Graz Univ. of Technology,   Austria"],"affiliations":[{"raw_affiliation_string":"Graz University of Technology, Austria","institution_ids":["https://openalex.org/I4092182"]},{"raw_affiliation_string":"Graz Univ. of Technology,   Austria","institution_ids":["https://openalex.org/I4092182"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5048047909","display_name":"Dieter Schmalstieg","orcid":"https://orcid.org/0000-0003-2813-2235"},"institutions":[{"id":"https://openalex.org/I4092182","display_name":"Graz University of Technology","ror":"https://ror.org/00d7xrm67","country_code":"AT","type":"education","lineage":["https://openalex.org/I4092182"]}],"countries":["AT"],"is_corresponding":false,"raw_author_name":"Dieter Schmalstieg","raw_affiliation_strings":["Graz University of Technology, Austria","Graz Univ. of Technology,   Austria"],"affiliations":[{"raw_affiliation_string":"Graz University of Technology, Austria","institution_ids":["https://openalex.org/I4092182"]},{"raw_affiliation_string":"Graz Univ. of Technology,   Austria","institution_ids":["https://openalex.org/I4092182"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5031057530"],"corresponding_institution_ids":["https://openalex.org/I4092182"],"apc_list":null,"apc_paid":null,"fwci":6.7882,"has_fulltext":false,"cited_by_count":61,"citation_normalized_percentile":{"value":0.97234439,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":null,"issue":null,"first_page":"57","last_page":"64"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10799","display_name":"Data Visualization and Analytics","score":0.9976000189781189,"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":0.9976000189781189,"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.9957000017166138,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9843999743461609,"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":0.7203841805458069},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.6524812579154968},{"id":"https://openalex.org/keywords/expression","display_name":"Expression (computer science)","score":0.6341891288757324},{"id":"https://openalex.org/keywords/interdependence","display_name":"Interdependence","score":0.6146944165229797},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.6049763560295105},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.4498797357082367},{"id":"https://openalex.org/keywords/relation","display_name":"Relation (database)","score":0.4485170841217041},{"id":"https://openalex.org/keywords/biological-pathway","display_name":"Biological pathway","score":0.4187275469303131},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.390484482049942},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.36198675632476807},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.34547826647758484},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3435501456260681},{"id":"https://openalex.org/keywords/human\u2013computer-interaction","display_name":"Human\u2013computer interaction","score":0.33118313550949097},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.29466789960861206},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.13850891590118408},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.09547516703605652}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7203841805458069},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.6524812579154968},{"id":"https://openalex.org/C90559484","wikidata":"https://www.wikidata.org/wiki/Q778379","display_name":"Expression (computer science)","level":2,"score":0.6341891288757324},{"id":"https://openalex.org/C185874996","wikidata":"https://www.wikidata.org/wiki/Q269699","display_name":"Interdependence","level":2,"score":0.6146944165229797},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.6049763560295105},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.4498797357082367},{"id":"https://openalex.org/C25343380","wikidata":"https://www.wikidata.org/wiki/Q277521","display_name":"Relation (database)","level":2,"score":0.4485170841217041},{"id":"https://openalex.org/C9927688","wikidata":"https://www.wikidata.org/wiki/Q4915012","display_name":"Biological pathway","level":4,"score":0.4187275469303131},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.390484482049942},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.36198675632476807},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.34547826647758484},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3435501456260681},{"id":"https://openalex.org/C107457646","wikidata":"https://www.wikidata.org/wiki/Q207434","display_name":"Human\u2013computer interaction","level":1,"score":0.33118313550949097},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.29466789960861206},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.13850891590118408},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.09547516703605652},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"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/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","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}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/pacificvis.2010.5429609","is_oa":false,"landing_page_url":"https://doi.org/10.1109/pacificvis.2010.5429609","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2010 IEEE Pacific Visualization Symposium (PacificVis)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320312299","display_name":"Ludwig Boltzmann Institut f\u00fcr Experimentelle und Klinische Traumatologie","ror":"https://ror.org/00a8zdv13"},{"id":"https://openalex.org/F4320326239","display_name":"Medizinische Universit\u00e4t Graz","ror":"https://ror.org/02n0bts35"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":27,"referenced_works":["https://openalex.org/W1983989230","https://openalex.org/W2050667238","https://openalex.org/W2075809334","https://openalex.org/W2095604271","https://openalex.org/W2103819200","https://openalex.org/W2103963076","https://openalex.org/W2105893525","https://openalex.org/W2106281550","https://openalex.org/W2113264354","https://openalex.org/W2123060905","https://openalex.org/W2132631291","https://openalex.org/W2135259419","https://openalex.org/W2142913541","https://openalex.org/W2145737999","https://openalex.org/W2146384526","https://openalex.org/W2150926065","https://openalex.org/W2157348185","https://openalex.org/W2162601703","https://openalex.org/W2165232124","https://openalex.org/W2167306162","https://openalex.org/W2167852549","https://openalex.org/W2167889627","https://openalex.org/W2973504572","https://openalex.org/W4232827796","https://openalex.org/W6674415941","https://openalex.org/W6678274143","https://openalex.org/W6684606577"],"related_works":["https://openalex.org/W2749324135","https://openalex.org/W2139079562","https://openalex.org/W4234874385","https://openalex.org/W2908433117","https://openalex.org/W2969604939","https://openalex.org/W2378306841","https://openalex.org/W114687057","https://openalex.org/W3122988618","https://openalex.org/W1994631104","https://openalex.org/W2323648130"],"abstract_inverted_index":{"The":[0],"goal":[1,94],"of":[2,12,18,26,48,75,153,162,171,174,191,237,242,248,256],"our":[3],"work":[4],"is":[5,33,95,146],"to":[6,35,97,148,159,181,201,220],"support":[7,149],"experts":[8],"in":[9,20,53,72,85,115,223],"the":[10,16,27,90,105,160,163,169,172,194,231,235,239,245,254,257,262,269],"process":[11,236],"hypotheses":[13],"generation":[14],"concerning":[15],"roles":[17],"genes":[19,82],"diseases.":[21],"For":[22],"a":[23,73,116,143,150,178,189],"deeper":[24],"understanding":[25,170,238],"complex":[28,240],"interdependencies":[29],"between":[30,107,112],"genes,":[31],"it":[32],"important":[34],"bring":[36],"gene":[37,103,182,207,249],"expressions":[38],"(measurements)":[39],"into":[40,63],"context":[41],"with":[42,188,213],"pathways.":[43],"Pathways,":[44],"which":[45,156,218],"are":[46,51,61,79,133],"models":[47],"biological":[49],"processes,":[50],"available":[52,258],"online":[54],"databases.":[55],"In":[56],"these":[57],"databases,":[58],"large":[59,136],"networks":[60],"decomposed":[62],"small":[64],"sub-graphs":[65],"for":[66,135,268],"better":[67],"manageability.":[68],"This":[69,166],"simplification":[70],"results":[71,228],"loss":[74],"context,":[76],"as":[77],"pathways":[78,110,114,155,243],"interconnected":[80],"and":[81,109,111,176,210,214,244,261],"can":[83,233],"occur":[84],"multiple":[86,113,131,154],"instances":[87],"scattered":[88],"over":[89],"network.":[91],"Our":[92],"main":[93],"therefore":[96],"present":[98],"all":[99],"relevant":[100],"information,":[101],"i.e.,":[102],"expressions,":[104],"relations":[106],"expression":[108,161,183,208,250],"simple,":[117],"yet":[118],"effective":[119],"way.":[120],"To":[121],"achieve":[122],"this":[123],"we":[124],"employ":[125],"two":[126],"different":[127,225],"multiple-view":[128],"approaches.":[129],"Traditional":[130],"views":[132],"used":[134],"datasets":[137],"or":[138],"highly":[139],"interactive":[140],"visualizations,":[141],"while":[142],"2.5D":[144,271],"technique":[145],"employed":[147],"seamless":[151],"navigation":[152],"simultaneously":[157],"links":[158],"contained":[164],"genes.":[165],"approach":[167],"facilitates":[168],"interconnection":[173],"pathways,":[175],"enables":[177],"non-distracting":[179],"relation":[180],"data.":[184],"We":[185],"evaluated":[186],"Caleydo":[187],"group":[190],"users":[192],"from":[193],"life":[195],"science":[196],"community.":[197],"Users":[198],"were":[199],"asked":[200],"perform":[202],"three":[203],"tasks:":[204],"pathway":[205],"exploration,":[206],"analysis":[209],"information":[211,260],"comparison":[212],"without":[215],"visual":[216],"links,":[217],"had":[219],"be":[221],"conducted":[222],"four":[224],"conditions.":[226],"Evaluation":[227],"show":[229],"that":[230],"system":[232],"improve":[234],"network":[241],"individual":[246],"effects":[247],"regulation":[251],"considerably.":[252],"Especially":[253],"quality":[255],"contextual":[259],"spatial":[263],"organization":[264],"was":[265],"rated":[266],"good":[267],"presented":[270],"setup.":[272]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":5},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":5},{"year":2017,"cited_by_count":6},{"year":2016,"cited_by_count":5},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":5},{"year":2013,"cited_by_count":3},{"year":2012,"cited_by_count":6}],"updated_date":"2026-04-02T13:48:15.688549","created_date":"2025-10-10T00:00:00"}