{"id":"https://openalex.org/W2132178765","doi":"https://doi.org/10.1142/s0219720005001375","title":"NOISE-ROBUST SOFT CLUSTERING OF GENE EXPRESSION TIME-COURSE DATA","display_name":"NOISE-ROBUST SOFT CLUSTERING OF GENE EXPRESSION TIME-COURSE DATA","publication_year":2005,"publication_date":"2005-07-18","ids":{"openalex":"https://openalex.org/W2132178765","doi":"https://doi.org/10.1142/s0219720005001375","mag":"2132178765","pmid":"https://pubmed.ncbi.nlm.nih.gov/16078370"},"language":"en","primary_location":{"is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720005001375","pdf_url":null,"source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false},"type":"article","type_crossref":"journal-article","indexed_in":["crossref","pubmed"],"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/A5046669390","display_name":"Matthias E. Futschik","orcid":"https://orcid.org/0000-0002-6245-8071"},"institutions":[{"id":"https://openalex.org/I39343248","display_name":"Humboldt-Universit\u00e4t zu Berlin","ror":"https://ror.org/01hcx6992","country_code":"DE","type":"education","lineage":["https://openalex.org/I39343248"]},{"id":"https://openalex.org/I80281795","display_name":"University of Otago","ror":"https://ror.org/01jmxt844","country_code":"NZ","type":"education","lineage":["https://openalex.org/I80281795"]}],"countries":["DE","NZ"],"is_corresponding":false,"raw_author_name":"MATTHIAS E. FUTSCHIK","raw_affiliation_strings":["Department of Information Science, University of Otago, PO Box 56, Dunedin, New Zealand","Institute of Theoretical Biology, Humboldt-University, Invalidenstr. 43, 10115 Berlin, Germany"],"affiliations":[{"raw_affiliation_string":"Institute of Theoretical Biology, Humboldt-University, Invalidenstr. 43, 10115 Berlin, Germany","institution_ids":["https://openalex.org/I39343248"]},{"raw_affiliation_string":"Department of Information Science, University of Otago, PO Box 56, Dunedin, New Zealand","institution_ids":["https://openalex.org/I80281795"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5024943111","display_name":"B Carlisle","orcid":null},"institutions":[{"id":"https://openalex.org/I80281795","display_name":"University of Otago","ror":"https://ror.org/01jmxt844","country_code":"NZ","type":"education","lineage":["https://openalex.org/I80281795"]}],"countries":["NZ"],"is_corresponding":false,"raw_author_name":"BRONWYN CARLISLE","raw_affiliation_strings":["Department of Biochemistry , University of Otago , PO Box 56, Dunedin, New Zealand"],"affiliations":[{"raw_affiliation_string":"Department of Biochemistry , University of Otago , PO Box 56, Dunedin, New Zealand","institution_ids":["https://openalex.org/I80281795"]}]}],"institution_assertions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":1.611,"has_fulltext":true,"fulltext_origin":"ngrams","cited_by_count":442,"citation_normalized_percentile":{"value":0.927475,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"03","issue":"04","first_page":"965","last_page":"988"},"is_retracted":false,"is_paratext":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9998,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9998,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.997,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9758,"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/consensus-clustering","display_name":"Consensus clustering","score":0.5648853},{"id":"https://openalex.org/keywords/single-linkage-clustering","display_name":"Single-linkage clustering","score":0.5516339},{"id":"https://openalex.org/keywords/clustering-high-dimensional-data","display_name":"Clustering high-dimensional data","score":0.51808757},{"id":"https://openalex.org/keywords/biclustering","display_name":"Biclustering","score":0.4485657}],"concepts":[{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.88699126},{"id":"https://openalex.org/C17212007","wikidata":"https://www.wikidata.org/wiki/Q5511111","display_name":"Fuzzy clustering","level":3,"score":0.6472007},{"id":"https://openalex.org/C33704608","wikidata":"https://www.wikidata.org/wiki/Q5014717","display_name":"CURE data clustering algorithm","level":4,"score":0.63665915},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.62175333},{"id":"https://openalex.org/C94641424","wikidata":"https://www.wikidata.org/wiki/Q5172845","display_name":"Correlation clustering","level":3,"score":0.6013082},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5938623},{"id":"https://openalex.org/C186767784","wikidata":"https://www.wikidata.org/wiki/Q5162841","display_name":"Consensus clustering","level":5,"score":0.5648853},{"id":"https://openalex.org/C22648726","wikidata":"https://www.wikidata.org/wiki/Q7523744","display_name":"Single-linkage clustering","level":5,"score":0.5516339},{"id":"https://openalex.org/C184509293","wikidata":"https://www.wikidata.org/wiki/Q5136711","display_name":"Clustering high-dimensional data","level":3,"score":0.51808757},{"id":"https://openalex.org/C99498987","wikidata":"https://www.wikidata.org/wiki/Q2210247","display_name":"Noise (video)","level":3,"score":0.45335144},{"id":"https://openalex.org/C144817290","wikidata":"https://www.wikidata.org/wiki/Q2976575","display_name":"Biclustering","level":5,"score":0.4485657},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.4255978},{"id":"https://openalex.org/C75553542","wikidata":"https://www.wikidata.org/wiki/Q178161","display_name":"A priori and a posteriori","level":2,"score":0.41551828},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.38970348},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":"","qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":"","qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D010363","descriptor_name":"Pattern Recognition, Automated","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010363","descriptor_name":"Pattern Recognition, Automated","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013269","descriptor_name":"Stochastic Processes","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":"","qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720005001375","pdf_url":null,"source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false},{"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/16078370","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":["National Institutes of Health"],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false}],"best_oa_location":null,"sustainable_development_goals":[],"grants":[],"datasets":[],"versions":[],"referenced_works_count":21,"referenced_works":["https://openalex.org/W1971784203","https://openalex.org/W1976208596","https://openalex.org/W1989297334","https://openalex.org/W2023971898","https://openalex.org/W2084908610","https://openalex.org/W2094510831","https://openalex.org/W2096863518","https://openalex.org/W2103453943","https://openalex.org/W2109619915","https://openalex.org/W2113076747","https://openalex.org/W2135000328","https://openalex.org/W2135187880","https://openalex.org/W2135951244","https://openalex.org/W2142460132","https://openalex.org/W2146264532","https://openalex.org/W2150926065","https://openalex.org/W2165298438","https://openalex.org/W2168157737","https://openalex.org/W2319660501","https://openalex.org/W2799061466","https://openalex.org/W4205687621"],"related_works":["https://openalex.org/W4230655713","https://openalex.org/W3186815950","https://openalex.org/W2611629964","https://openalex.org/W2590117803","https://openalex.org/W2406185607","https://openalex.org/W2389934482","https://openalex.org/W2139280638","https://openalex.org/W2111827030","https://openalex.org/W2111119584","https://openalex.org/W2071000654"],"abstract_inverted_index":{"Clustering":[0],"is":[1,13,44,52,61,148,211],"an":[2],"important":[3],"tool":[4],"in":[5,20],"microarray":[6,67],"data":[7,24,171],"analysis.":[8,172],"This":[9,118,161],"unsupervised":[10],"learning":[11],"technique":[12],"commonly":[14],"used":[15,121],"to":[16,47,83,184],"reveal":[17],"structures":[18],"hidden":[19],"large":[21],"gene":[22,43,71],"expression":[23],"sets.":[25],"The":[26,207],"vast":[27],"majority":[28],"of":[29,38,89,156,165],"clustering":[30,51,77,95,140,147,174,187,196],"algorithms":[31,78],"applied":[32,93],"so":[33],"far":[34],"produce":[35],"hard":[36,76,90],"partitions":[37],"the":[39,64,87,123,131,163,170,179,202],"data,":[40,69],"i.e.":[41,109],"each":[42],"assigned":[45],"exactly":[46],"one":[48],"cluster.":[49],"Hard":[50],"favourable":[53],"if":[54],"clusters":[55,72,115],"are":[56,79],"well":[57,113],"separated.":[58],"However,":[59],"this":[60],"generally":[62],"not":[63],"case":[65],"for":[66,100,122,127,194],"time-course":[68],"where":[70],"frequently":[73],"overlap.":[74],"Additionally,":[75,145],"often":[80],"highly":[81],"sensitive":[82],"noise.":[84],"To":[85],"overcome":[86],"limitations":[88],"clustering,":[91],"we":[92],"soft":[94,146,195],"which":[96],"offers":[97],"several":[98],"advantages":[99],"researchers.":[101],"First,":[102],"it":[103,110],"generates":[104],"accessible":[105],"internal":[106],"cluster":[107],"structures,":[108],"indicates":[111],"how":[112],"corresponding":[114],"represent":[116],"genes.":[117],"can":[119,142,158],"be":[120,143,159],"more":[124,149],"targeted":[125],"search":[126],"regulatory":[128],"elements.":[129],"Second,":[130],"overall":[132],"relation":[133],"between":[134],"clusters,":[135],"and":[136,152],"thus":[137],"a":[138,153],"global":[139],"structure,":[141],"defined.":[144],"noise":[150],"robust":[151],"priori":[154],"pre-filtering":[155],"genes":[157,168],"avoided.":[160],"prevents":[162],"exclusion":[164],"biologically":[166],"relevant":[167],"from":[169],"Soft":[173],"was":[175],"implemented":[176],"here":[177],"using":[178],"fuzzy":[180],"c-means":[181],"algorithm.":[182],"Procedures":[183],"find":[185],"optimal":[186],"parameters":[188],"were":[189],"developed.":[190],"A":[191],"software":[192],"package":[193,208],"has":[197],"been":[198],"developed":[199],"based":[200],"on":[201],"open-source":[203],"statistical":[204],"language":[205],"R.":[206],"called":[209],"Mfuzz":[210],"freely":[212],"available.":[213]},"cited_by_api_url":"https://api.openalex.org/works?filter=cites:W2132178765","counts_by_year":[{"year":2024,"cited_by_count":52},{"year":2023,"cited_by_count":54},{"year":2022,"cited_by_count":57},{"year":2021,"cited_by_count":31},{"year":2020,"cited_by_count":39},{"year":2019,"cited_by_count":28},{"year":2018,"cited_by_count":23},{"year":2017,"cited_by_count":28},{"year":2016,"cited_by_count":14},{"year":2015,"cited_by_count":13},{"year":2014,"cited_by_count":19},{"year":2013,"cited_by_count":15},{"year":2012,"cited_by_count":16}],"updated_date":"2025-01-07T01:55:48.006560","created_date":"2016-06-24"}