{"id":"https://openalex.org/W2524636512","doi":"https://doi.org/10.3390/jimaging2040029","title":"Visual Analytics of Complex Genomics Data to Guide Effective Treatment Decisions","display_name":"Visual Analytics of Complex Genomics Data to Guide Effective Treatment Decisions","publication_year":2016,"publication_date":"2016-09-30","ids":{"openalex":"https://openalex.org/W2524636512","doi":"https://doi.org/10.3390/jimaging2040029","mag":"2524636512"},"language":"en","primary_location":{"id":"doi:10.3390/jimaging2040029","is_oa":true,"landing_page_url":"https://doi.org/10.3390/jimaging2040029","pdf_url":"https://www.mdpi.com/2313-433X/2/4/29/pdf?version=1475209859","source":{"id":"https://openalex.org/S2736465063","display_name":"Journal of Imaging","issn_l":"2313-433X","issn":["2313-433X"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Imaging","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.mdpi.com/2313-433X/2/4/29/pdf?version=1475209859","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5052630735","display_name":"Quang Vinh Nguy\u1ec5n","orcid":"https://orcid.org/0000-0002-0815-6224"},"institutions":[{"id":"https://openalex.org/I63525965","display_name":"Western Sydney University","ror":"https://ror.org/03t52dk35","country_code":"AU","type":"education","lineage":["https://openalex.org/I63525965"]}],"countries":["AU"],"is_corresponding":true,"raw_author_name":"Quang Nguyen","raw_affiliation_strings":["MARCS Institute and School of Computing, Engineering and Mathematics, Western Sydney University, Penrith 2751, NSW, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"MARCS Institute and School of Computing, Engineering and Mathematics, Western Sydney University, Penrith 2751, NSW, Australia","institution_ids":["https://openalex.org/I63525965"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069632638","display_name":"Nader Hasan Khalifa","orcid":null},"institutions":[{"id":"https://openalex.org/I63525965","display_name":"Western Sydney University","ror":"https://ror.org/03t52dk35","country_code":"AU","type":"education","lineage":["https://openalex.org/I63525965"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Nader Khalifa","raw_affiliation_strings":["MARCS Institute and School of Computing, Engineering and Mathematics, Western Sydney University, Penrith 2751, NSW, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"MARCS Institute and School of Computing, Engineering and Mathematics, Western Sydney University, Penrith 2751, NSW, Australia","institution_ids":["https://openalex.org/I63525965"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112217523","display_name":"Pat Alzamora","orcid":null},"institutions":[{"id":"https://openalex.org/I63525965","display_name":"Western Sydney University","ror":"https://ror.org/03t52dk35","country_code":"AU","type":"education","lineage":["https://openalex.org/I63525965"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Pat Alzamora","raw_affiliation_strings":["MARCS Institute and School of Computing, Engineering and Mathematics, Western Sydney University, Penrith 2751, NSW, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"MARCS Institute and School of Computing, Engineering and Mathematics, Western Sydney University, Penrith 2751, NSW, Australia","institution_ids":["https://openalex.org/I63525965"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016542291","display_name":"Andrew Gleeson","orcid":"https://orcid.org/0000-0003-0280-1031"},"institutions":[{"id":"https://openalex.org/I63525965","display_name":"Western Sydney University","ror":"https://ror.org/03t52dk35","country_code":"AU","type":"education","lineage":["https://openalex.org/I63525965"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Andrew Gleeson","raw_affiliation_strings":["MARCS Institute and School of Computing, Engineering and Mathematics, Western Sydney University, Penrith 2751, NSW, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"MARCS Institute and School of Computing, Engineering and Mathematics, Western Sydney University, Penrith 2751, NSW, Australia","institution_ids":["https://openalex.org/I63525965"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005290498","display_name":"Daniel Catchpoole","orcid":"https://orcid.org/0000-0001-5836-1413"},"institutions":[{"id":"https://openalex.org/I2802384191","display_name":"Children's Hospital at Westmead","ror":"https://ror.org/05k0s5494","country_code":"AU","type":"healthcare","lineage":["https://openalex.org/I2802384191"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Daniel Catchpoole","raw_affiliation_strings":["The Tumour Bank, Children\u2019s Cancer Research Unit, The Kids Research Institute, The Children\u2019s Hospital at Westmead, Westmead 2145, NSW, Australia","The Tumour Bank, Children's Cancer Research Unit, The Kids Research Institute, The Children's Hospital at Westmead, Westmead 2145, NSW, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"The Tumour Bank, Children\u2019s Cancer Research Unit, The Kids Research Institute, The Children\u2019s Hospital at Westmead, Westmead 2145, NSW, Australia","institution_ids":["https://openalex.org/I2802384191"]},{"raw_affiliation_string":"The Tumour Bank, Children's Cancer Research Unit, The Kids Research Institute, The Children's Hospital at Westmead, Westmead 2145, NSW, Australia","institution_ids":["https://openalex.org/I2802384191"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052377220","display_name":"Paul Kennedy","orcid":"https://orcid.org/0000-0001-7837-3171"},"institutions":[{"id":"https://openalex.org/I114017466","display_name":"University of Technology Sydney","ror":"https://ror.org/03f0f6041","country_code":"AU","type":"education","lineage":["https://openalex.org/I114017466"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Paul Kennedy","raw_affiliation_strings":["School of Software, University of Technology Sydney, Broadway 2007, NSW, Australia"],"raw_orcid":"https://orcid.org/0000-0001-7837-3171","affiliations":[{"raw_affiliation_string":"School of Software, University of Technology Sydney, Broadway 2007, NSW, Australia","institution_ids":["https://openalex.org/I114017466"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5048705023","display_name":"Simeon Simoff","orcid":"https://orcid.org/0000-0001-9895-4109"},"institutions":[{"id":"https://openalex.org/I63525965","display_name":"Western Sydney University","ror":"https://ror.org/03t52dk35","country_code":"AU","type":"education","lineage":["https://openalex.org/I63525965"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Simeon Simoff","raw_affiliation_strings":["MARCS Institute and School of Computing, Engineering and Mathematics, Western Sydney University, Penrith 2751, NSW, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"MARCS Institute and School of Computing, Engineering and Mathematics, Western Sydney University, Penrith 2751, NSW, Australia","institution_ids":["https://openalex.org/I63525965"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5052630735"],"corresponding_institution_ids":["https://openalex.org/I63525965"],"apc_list":{"value":1800,"currency":"CHF","value_usd":2172},"apc_paid":{"value":1800,"currency":"CHF","value_usd":2172},"fwci":0.802,"has_fulltext":false,"cited_by_count":15,"citation_normalized_percentile":{"value":0.7505302,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"2","issue":"4","first_page":"29","last_page":"29"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9944999814033508,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9944999814033508,"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":0.9944999814033508,"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":0.9801999926567078,"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/visual-analytics","display_name":"Visual analytics","score":0.7623592615127563},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7351675033569336},{"id":"https://openalex.org/keywords/analytics","display_name":"Analytics","score":0.5709885954856873},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.5285369753837585},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.5222347974777222},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.49454209208488464},{"id":"https://openalex.org/keywords/big-data","display_name":"Big data","score":0.41561487317085266},{"id":"https://openalex.org/keywords/data-visualization","display_name":"Data visualization","score":0.4144916832447052},{"id":"https://openalex.org/keywords/human\u2013computer-interaction","display_name":"Human\u2013computer interaction","score":0.3774288594722748},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.20899221301078796},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.2028222382068634},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.20068541169166565}],"concepts":[{"id":"https://openalex.org/C59732488","wikidata":"https://www.wikidata.org/wiki/Q2528440","display_name":"Visual analytics","level":3,"score":0.7623592615127563},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7351675033569336},{"id":"https://openalex.org/C79158427","wikidata":"https://www.wikidata.org/wiki/Q485396","display_name":"Analytics","level":2,"score":0.5709885954856873},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.5285369753837585},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.5222347974777222},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.49454209208488464},{"id":"https://openalex.org/C75684735","wikidata":"https://www.wikidata.org/wiki/Q858810","display_name":"Big data","level":2,"score":0.41561487317085266},{"id":"https://openalex.org/C172367668","wikidata":"https://www.wikidata.org/wiki/Q6504956","display_name":"Data visualization","level":3,"score":0.4144916832447052},{"id":"https://openalex.org/C107457646","wikidata":"https://www.wikidata.org/wiki/Q207434","display_name":"Human\u2013computer interaction","level":1,"score":0.3774288594722748},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.20899221301078796},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.2028222382068634},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.20068541169166565},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.3390/jimaging2040029","is_oa":true,"landing_page_url":"https://doi.org/10.3390/jimaging2040029","pdf_url":"https://www.mdpi.com/2313-433X/2/4/29/pdf?version=1475209859","source":{"id":"https://openalex.org/S2736465063","display_name":"Journal of Imaging","issn_l":"2313-433X","issn":["2313-433X"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Imaging","raw_type":"journal-article"},{"id":"pmh:oai:doaj.org/article:5101cd9b7ed54e2a8c7a3189bd2099bd","is_oa":true,"landing_page_url":"https://doaj.org/article/5101cd9b7ed54e2a8c7a3189bd2099bd","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"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":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Journal of Imaging, Vol 2, Iss 4, p 29 (2016)","raw_type":"article"},{"id":"pmh:oai:opus.lib.uts.edu.au:10453/88088","is_oa":false,"landing_page_url":"http://hdl.handle.net/10453/88088","pdf_url":null,"source":{"id":"https://openalex.org/S4306401357","display_name":"UTS ePRESS (University of Technology Sydney)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I114017466","host_organization_name":"University of Technology Sydney","host_organization_lineage":["https://openalex.org/I114017466"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Journal Article"}],"best_oa_location":{"id":"doi:10.3390/jimaging2040029","is_oa":true,"landing_page_url":"https://doi.org/10.3390/jimaging2040029","pdf_url":"https://www.mdpi.com/2313-433X/2/4/29/pdf?version=1475209859","source":{"id":"https://openalex.org/S2736465063","display_name":"Journal of Imaging","issn_l":"2313-433X","issn":["2313-433X"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Imaging","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.47999998927116394,"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3"}],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W2524636512.pdf"},"referenced_works_count":38,"referenced_works":["https://openalex.org/W1489483057","https://openalex.org/W1520812622","https://openalex.org/W1564398635","https://openalex.org/W1614646693","https://openalex.org/W1964231749","https://openalex.org/W1966074188","https://openalex.org/W1973354049","https://openalex.org/W1989660002","https://openalex.org/W2009307530","https://openalex.org/W2013444425","https://openalex.org/W2021689070","https://openalex.org/W2024712933","https://openalex.org/W2026961522","https://openalex.org/W2034400748","https://openalex.org/W2049538695","https://openalex.org/W2056254608","https://openalex.org/W2061409893","https://openalex.org/W2069548171","https://openalex.org/W2080993455","https://openalex.org/W2087726300","https://openalex.org/W2093387569","https://openalex.org/W2094419284","https://openalex.org/W2099389107","https://openalex.org/W2115114820","https://openalex.org/W2119387367","https://openalex.org/W2119501563","https://openalex.org/W2125697820","https://openalex.org/W2128965734","https://openalex.org/W2140306503","https://openalex.org/W2162500454","https://openalex.org/W2162747488","https://openalex.org/W2165014022","https://openalex.org/W2171879013","https://openalex.org/W2294459794","https://openalex.org/W2911964244","https://openalex.org/W4235569188","https://openalex.org/W4244000367","https://openalex.org/W6610686212"],"related_works":["https://openalex.org/W2062940763","https://openalex.org/W2186032312","https://openalex.org/W3149127250","https://openalex.org/W2158984754","https://openalex.org/W2080934634","https://openalex.org/W4246764483","https://openalex.org/W2126824079","https://openalex.org/W2143428259","https://openalex.org/W2112083262","https://openalex.org/W4378086562"],"abstract_inverted_index":{"In":[0,142],"cancer":[1,109],"biology,":[2],"genomics":[3,79],"represents":[4],"a":[5,45,66,158],"big":[6],"data":[7,13],"problem":[8],"that":[9,27,71],"needs":[10],"accurate":[11],"visual":[12,68,162],"processing":[14],"and":[15,35,60,77,133,136,160,176,191,213],"analytics.":[16],"The":[17,111],"human":[18],"genome":[19,54],"is":[20],"very":[21],"complex":[22,78],"with":[23,187,203],"thousands":[24],"of":[25,39,52,75,88,97,114,164,197],"genes":[26],"contain":[28],"the":[29,32,36,50,53,86,89,94,118,145,153,165,195,221,226],"information":[30],"about":[31],"individual":[33,98],"patients":[34],"biological":[37],"mechanisms":[38],"their":[40],"disease.":[41],"Therefore,":[42],"when":[43],"building":[44],"framework":[46,70,112],"for":[47,107,156],"personalised":[48,122],"treatment,":[49],"complexity":[51],"must":[55],"be":[56],"captured":[57],"in":[58,225],"meaningful":[59],"actionable":[61],"ways.":[62],"This":[63,167],"paper":[64],"presents":[65],"novel":[67],"analytics":[69,120],"enables":[72],"effective":[73,104,222],"analysis":[74],"large":[76],"data.":[80],"By":[81],"providing":[82],"interactive":[83,161],"visualisations":[84],"from":[85,205],"overview":[87],"entire":[90],"patient":[91],"cohort":[92],"to":[93,144,148,169,179,219],"detail":[95],"view":[96],"genes,":[99],"our":[100,198],"work":[101],"potentially":[102],"guides":[103],"treatment":[105,223],"decisions":[106],"childhood":[108,206],"patients.":[110],"consists":[113],"multiple":[115],"components":[116],"enabling":[117],"complete":[119],"supporting":[121],"medicines,":[123],"including":[124],"similarity":[125],"space":[126],"construction,":[127],"automated":[128],"analysis,":[129],"visualisation,":[130],"gene-to-gene":[131],"comparison":[132],"user-centric":[134],"interaction":[135],"exploration":[137],"based":[138],"on":[139,217],"feature":[140],"selection.":[141],"addition":[143],"traditional":[146],"way":[147],"visualise":[149],"data,":[150],"we":[151],"utilise":[152],"Unity3D":[154],"platform":[155],"developing":[157],"smooth":[159],"presentation":[163],"information.":[166],"aims":[168],"provide":[170],"better":[171],"rendering,":[172],"image":[173],"quality,":[174],"ergonomics":[175],"user":[177],"experience":[178],"non-specialists":[180],"or":[181],"young":[182],"users":[183],"who":[184],"are":[185],"familiar":[186],"3D":[188],"gaming":[189],"environments":[190],"interfaces.":[192],"We":[193],"illustrate":[194],"effectiveness":[196],"approach":[199],"through":[200],"case":[201],"studies":[202],"datasets":[204],"cancers,":[207],"B-cell":[208],"Acute":[209],"Lymphoblastic":[210],"Leukaemia":[211],"(ALL)":[212],"Rhabdomyosarcoma":[214],"(RMS)":[215],"patients,":[216],"how":[218],"guide":[220],"decision":[224],"cohort.":[227]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":3},{"year":2020,"cited_by_count":4},{"year":2019,"cited_by_count":4},{"year":2018,"cited_by_count":1}],"updated_date":"2026-08-21T09:56:20.448147","created_date":"2025-10-10T00:00:00"}