{"id":"https://openalex.org/W2103609333","doi":"https://doi.org/10.1109/cibcb.2012.6217231","title":"Novel visualization methods for protein data","display_name":"Novel visualization methods for protein data","publication_year":2012,"publication_date":"2012-05-01","ids":{"openalex":"https://openalex.org/W2103609333","doi":"https://doi.org/10.1109/cibcb.2012.6217231","mag":"2103609333"},"language":"en","primary_location":{"id":"doi:10.1109/cibcb.2012.6217231","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cibcb.2012.6217231","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 Computational Intelligence in Bioinformatics and Computational Biology (CIBCB)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://publications.aston.ac.uk/id/eprint/16026/1/PID2253249.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5028514360","display_name":"Shahzad Mumtaz","orcid":"https://orcid.org/0000-0003-2606-2405"},"institutions":[{"id":"https://openalex.org/I169199633","display_name":"Aston University","ror":"https://ror.org/05j0ve876","country_code":"GB","type":"education","lineage":["https://openalex.org/I169199633"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"S. Mumtaz","raw_affiliation_strings":["Non-Linearity and Complexity Research Group, School of Engineering and Applied Sciences, Aston University, Birmingham, UK","Non-Linearity and Complexity Research Group, School of Engineering and Applied Sciences, Aston University, Birmingham, B4 7ET, UK"],"affiliations":[{"raw_affiliation_string":"Non-Linearity and Complexity Research Group, School of Engineering and Applied Sciences, Aston University, Birmingham, UK","institution_ids":["https://openalex.org/I169199633"]},{"raw_affiliation_string":"Non-Linearity and Complexity Research Group, School of Engineering and Applied Sciences, Aston University, Birmingham, B4 7ET, UK","institution_ids":["https://openalex.org/I169199633"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086695297","display_name":"Ian T. Nabney","orcid":"https://orcid.org/0000-0003-1513-993X"},"institutions":[{"id":"https://openalex.org/I169199633","display_name":"Aston University","ror":"https://ror.org/05j0ve876","country_code":"GB","type":"education","lineage":["https://openalex.org/I169199633"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"I. T. Nabney","raw_affiliation_strings":["Non-Linearity and Complexity Research Group, School of Engineering and Applied Sciences, Aston University, Birmingham, UK","Non-Linearity and Complexity Research Group, School of Engineering and Applied Sciences, Aston University, Birmingham, B4 7ET, UK"],"affiliations":[{"raw_affiliation_string":"Non-Linearity and Complexity Research Group, School of Engineering and Applied Sciences, Aston University, Birmingham, UK","institution_ids":["https://openalex.org/I169199633"]},{"raw_affiliation_string":"Non-Linearity and Complexity Research Group, School of Engineering and Applied Sciences, Aston University, Birmingham, B4 7ET, UK","institution_ids":["https://openalex.org/I169199633"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5052912254","display_name":"Darren R. Flower","orcid":"https://orcid.org/0000-0002-8542-7067"},"institutions":[{"id":"https://openalex.org/I169199633","display_name":"Aston University","ror":"https://ror.org/05j0ve876","country_code":"GB","type":"education","lineage":["https://openalex.org/I169199633"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"D. Flower","raw_affiliation_strings":["School of Life and Health Sciences, Aston University, Birmingham, UK","School of Life & Health Sciences, Aston University, Birmingham, B4 7ET, UK,"],"affiliations":[{"raw_affiliation_string":"School of Life and Health Sciences, Aston University, Birmingham, UK","institution_ids":["https://openalex.org/I169199633"]},{"raw_affiliation_string":"School of Life & Health Sciences, Aston University, Birmingham, B4 7ET, UK,","institution_ids":["https://openalex.org/I169199633"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5028514360"],"corresponding_institution_ids":["https://openalex.org/I169199633"],"apc_list":null,"apc_paid":null,"fwci":1.1758,"has_fulltext":true,"cited_by_count":5,"citation_normalized_percentile":{"value":0.8605346,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"36","issue":null,"first_page":"198","last_page":"205"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.9922999739646912,"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"}},"topics":[{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.9922999739646912,"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":0.9901000261306763,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9898999929428101,"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/visualization","display_name":"Visualization","score":0.7122235894203186},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6741621494293213},{"id":"https://openalex.org/keywords/data-visualization","display_name":"Data visualization","score":0.567406952381134},{"id":"https://openalex.org/keywords/projection","display_name":"Projection (relational algebra)","score":0.5620147585868835},{"id":"https://openalex.org/keywords/principal-component-analysis","display_name":"Principal component analysis","score":0.5559706687927246},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.5549359321594238},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4922570288181305},{"id":"https://openalex.org/keywords/latent-variable-model","display_name":"Latent variable model","score":0.4359017610549927},{"id":"https://openalex.org/keywords/gaussian-process","display_name":"Gaussian process","score":0.42677903175354004},{"id":"https://openalex.org/keywords/latent-variable","display_name":"Latent variable","score":0.40451961755752563},{"id":"https://openalex.org/keywords/gaussian","display_name":"Gaussian","score":0.39733538031578064},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3810810148715973},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.29031020402908325}],"concepts":[{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.7122235894203186},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6741621494293213},{"id":"https://openalex.org/C172367668","wikidata":"https://www.wikidata.org/wiki/Q6504956","display_name":"Data visualization","level":3,"score":0.567406952381134},{"id":"https://openalex.org/C57493831","wikidata":"https://www.wikidata.org/wiki/Q3134666","display_name":"Projection (relational algebra)","level":2,"score":0.5620147585868835},{"id":"https://openalex.org/C27438332","wikidata":"https://www.wikidata.org/wiki/Q2873","display_name":"Principal component analysis","level":2,"score":0.5559706687927246},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.5549359321594238},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4922570288181305},{"id":"https://openalex.org/C65965080","wikidata":"https://www.wikidata.org/wiki/Q1806885","display_name":"Latent variable model","level":3,"score":0.4359017610549927},{"id":"https://openalex.org/C61326573","wikidata":"https://www.wikidata.org/wiki/Q1496376","display_name":"Gaussian process","level":3,"score":0.42677903175354004},{"id":"https://openalex.org/C51167844","wikidata":"https://www.wikidata.org/wiki/Q4422623","display_name":"Latent variable","level":2,"score":0.40451961755752563},{"id":"https://openalex.org/C163716315","wikidata":"https://www.wikidata.org/wiki/Q901177","display_name":"Gaussian","level":2,"score":0.39733538031578064},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3810810148715973},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.29031020402908325},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1109/cibcb.2012.6217231","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cibcb.2012.6217231","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 Computational Intelligence in Bioinformatics and Computational Biology (CIBCB)","raw_type":"proceedings-article"},{"id":"pmh:oai:publications.aston.ac.uk:16026","is_oa":true,"landing_page_url":"https://publications.aston.ac.uk/view/author/d1763711db0822a33b28dc4ec669187e.html>","pdf_url":"https://publications.aston.ac.uk/id/eprint/16026/1/PID2253249.pdf","source":{"id":"https://openalex.org/S4306400483","display_name":"Aston Publications Explorer (Aston University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I169199633","host_organization_name":"Aston University","host_organization_lineage":["https://openalex.org/I169199633"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"NonPeerReviewed"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.425.4086","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.425.4086","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://eprints.aston.ac.uk/16026/1/PID2253249.pdf","raw_type":"text"},{"id":"pmh:oai:research-information.bris.ac.uk:openaire_cris_publications/cdc644e0-fb26-4ec7-b152-bb6b3059d6d7","is_oa":false,"landing_page_url":"https://research-information.bris.ac.uk/en/publications/cdc644e0-fb26-4ec7-b152-bb6b3059d6d7","pdf_url":null,"source":{"id":"https://openalex.org/S7407055359","display_name":"Explore Bristol Research","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Mumtaz, S, Nabney, I & Flower, D 2012, Novel visualization methods for protein data. in 2012 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB). IEEE Computer Society, United States, pp. 198-205.","raw_type":"bookPart"}],"best_oa_location":{"id":"pmh:oai:publications.aston.ac.uk:16026","is_oa":true,"landing_page_url":"https://publications.aston.ac.uk/view/author/d1763711db0822a33b28dc4ec669187e.html>","pdf_url":"https://publications.aston.ac.uk/id/eprint/16026/1/PID2253249.pdf","source":{"id":"https://openalex.org/S4306400483","display_name":"Aston Publications Explorer (Aston University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I169199633","host_organization_name":"Aston University","host_organization_lineage":["https://openalex.org/I169199633"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"NonPeerReviewed"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320307646","display_name":"National Center for Responsible Gaming","ror":"https://ror.org/03xeqqt61"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2103609333.pdf","grobid_xml":"https://content.openalex.org/works/W2103609333.grobid-xml"},"referenced_works_count":58,"referenced_works":["https://openalex.org/W1483072991","https://openalex.org/W1508885706","https://openalex.org/W1516459493","https://openalex.org/W1541678779","https://openalex.org/W1544324307","https://openalex.org/W1554663460","https://openalex.org/W1571401318","https://openalex.org/W1601795611","https://openalex.org/W1663973292","https://openalex.org/W1679913846","https://openalex.org/W1726174625","https://openalex.org/W1802211083","https://openalex.org/W1966041739","https://openalex.org/W1966908461","https://openalex.org/W1984319064","https://openalex.org/W2007490029","https://openalex.org/W2009400150","https://openalex.org/W2013238066","https://openalex.org/W2029582401","https://openalex.org/W2035187556","https://openalex.org/W2048947602","https://openalex.org/W2071128523","https://openalex.org/W2082612735","https://openalex.org/W2088534163","https://openalex.org/W2095127032","https://openalex.org/W2098793454","https://openalex.org/W2099111195","https://openalex.org/W2101897623","https://openalex.org/W2107636931","https://openalex.org/W2109612279","https://openalex.org/W2114792064","https://openalex.org/W2115392836","https://openalex.org/W2117479478","https://openalex.org/W2122037843","https://openalex.org/W2122692174","https://openalex.org/W2134312057","https://openalex.org/W2138199375","https://openalex.org/W2140130790","https://openalex.org/W2144332894","https://openalex.org/W2145378442","https://openalex.org/W2148319892","https://openalex.org/W2148694408","https://openalex.org/W2152208870","https://openalex.org/W2158418925","https://openalex.org/W2161448051","https://openalex.org/W2161840436","https://openalex.org/W2169779569","https://openalex.org/W2186383363","https://openalex.org/W2294798173","https://openalex.org/W2341171179","https://openalex.org/W2399447247","https://openalex.org/W2495346011","https://openalex.org/W3033414884","https://openalex.org/W4230761810","https://openalex.org/W4242855320","https://openalex.org/W4245176872","https://openalex.org/W4319308466","https://openalex.org/W6684785420"],"related_works":["https://openalex.org/W2461917396","https://openalex.org/W1966667550","https://openalex.org/W2037497866","https://openalex.org/W4243467573","https://openalex.org/W1502435251","https://openalex.org/W62001224","https://openalex.org/W3032390039","https://openalex.org/W1584341211","https://openalex.org/W3122667150","https://openalex.org/W3145681568"],"abstract_inverted_index":{"Visualization":[0],"of":[1,16,51,90,98],"high-dimensional":[2,40],"data":[3,18,72,97],"has":[4],"always":[5],"been":[6],"a":[7],"challenging":[8],"task.":[9],"Here":[10],"we":[11,104],"discuss":[12],"and":[13,25,57,92,103,119],"propose":[14],"variants":[15],"non-linear":[17],"projection":[19,111],"methods":[20],"(Generative":[21],"Topographic":[22],"Mapping":[23],"(GTM)":[24],"GTM":[26,91],"with":[27,96,108],"simultaneous":[28],"feature":[29],"saliency":[30],"(GTM-FS))":[31],"that":[32,83],"are":[33],"adapted":[34],"to":[35],"be":[36],"effective":[37],"on":[38],"very":[39],"data.":[41],"The":[42,80],"adaptations":[43],"use":[44],"log":[45],"space":[46],"values":[47],"at":[48],"certain":[49],"steps":[50],"the":[52,59,65,84,87,106],"Expectation":[53],"Maximization":[54],"(EM)":[55],"algorithm":[56],"during":[58],"visualization":[60],"process.":[61],"We":[62],"have":[63],"tested":[64],"proposed":[66],"algorithms":[67],"by":[68],"visualizing":[69],"electrostatic":[70],"potential":[71],"for":[73],"Major":[74],"Histocompatibility":[75],"Complex":[76],"(MHC)":[77],"class-I":[78],"proteins.":[79],"experiments":[81],"show":[82],"variation":[85],"in":[86],"original":[88],"version":[89],"GTM-FS":[93],"worked":[94],"successfully":[95],"more":[99],"than":[100],"2000":[101],"dimensions":[102],"compare":[105],"results":[107],"other":[109],"linear/nonlinear":[110],"methods:":[112],"Principal":[113],"Component":[114],"Analysis":[115],"(PCA),":[116],"Neuroscale":[117],"(NSC)":[118],"Gaussian":[120],"Process":[121],"Latent":[122],"Variable":[123],"Model":[124],"(GPLVM).":[125]},"counts_by_year":[{"year":2019,"cited_by_count":1},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":2}],"updated_date":"2026-04-12T07:58:50.170612","created_date":"2025-10-10T00:00:00"}
