{"id":"https://openalex.org/W3131617795","doi":"https://doi.org/10.1093/bioinformatics/btab105","title":"CuBlock: a cross-platform normalization method for gene-expression microarrays","display_name":"CuBlock: a cross-platform normalization method for gene-expression microarrays","publication_year":2021,"publication_date":"2021-02-16","ids":{"openalex":"https://openalex.org/W3131617795","doi":"https://doi.org/10.1093/bioinformatics/btab105","mag":"3131617795","pmid":"https://pubmed.ncbi.nlm.nih.gov/33609102"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btab105","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab105","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/37/16/2365/39950152/btab105.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/37/16/2365/39950152/btab105.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5078219412","display_name":"Valentin Junet","orcid":"https://orcid.org/0000-0002-6138-0612"},"institutions":[{"id":"https://openalex.org/I123044942","display_name":"Universitat Aut\u00f2noma de Barcelona","ror":"https://ror.org/052g8jq94","country_code":"ES","type":"education","lineage":["https://openalex.org/I123044942"]},{"id":"https://openalex.org/I4210164457","display_name":"Anaxomics (Spain)","ror":"https://ror.org/05jnac203","country_code":"ES","type":"company","lineage":["https://openalex.org/I4210164457"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Valentin Junet","raw_affiliation_strings":["Anaxomics Biotech SL , Barcelona 08008, Spain","Institute of Biotechnology and Biomedicine, Universitat Aut\u00f2noma de Barcelona , Barcelona 08193, Spain"],"raw_orcid":"https://orcid.org/0000-0002-6138-0612","affiliations":[{"raw_affiliation_string":"Anaxomics Biotech SL , Barcelona 08008, Spain","institution_ids":["https://openalex.org/I4210164457"]},{"raw_affiliation_string":"Institute of Biotechnology and Biomedicine, Universitat Aut\u00f2noma de Barcelona , Barcelona 08193, Spain","institution_ids":["https://openalex.org/I123044942"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066516647","display_name":"Judith Farr\u00e9s","orcid":"https://orcid.org/0000-0002-0958-0510"},"institutions":[{"id":"https://openalex.org/I4210164457","display_name":"Anaxomics (Spain)","ror":"https://ror.org/05jnac203","country_code":"ES","type":"company","lineage":["https://openalex.org/I4210164457"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Judith Farr\u00e9s","raw_affiliation_strings":["Anaxomics Biotech SL , Barcelona 08008, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Anaxomics Biotech SL , Barcelona 08008, Spain","institution_ids":["https://openalex.org/I4210164457"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061156690","display_name":"Jos\u00e9 Manuel Mas","orcid":"https://orcid.org/0009-0007-3565-8805"},"institutions":[{"id":"https://openalex.org/I4210164457","display_name":"Anaxomics (Spain)","ror":"https://ror.org/05jnac203","country_code":"ES","type":"company","lineage":["https://openalex.org/I4210164457"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Jos\u00e9 M Mas","raw_affiliation_strings":["Anaxomics Biotech SL , Barcelona 08008, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Anaxomics Biotech SL , Barcelona 08008, Spain","institution_ids":["https://openalex.org/I4210164457"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5027747641","display_name":"Xavier Daura","orcid":"https://orcid.org/0000-0001-9235-6730"},"institutions":[{"id":"https://openalex.org/I11932220","display_name":"Instituci\u00f3 Catalana de Recerca i Estudis Avan\u00e7ats","ror":"https://ror.org/0371hy230","country_code":"ES","type":"nonprofit","lineage":["https://openalex.org/I11932220"]},{"id":"https://openalex.org/I123044942","display_name":"Universitat Aut\u00f2noma de Barcelona","ror":"https://ror.org/052g8jq94","country_code":"ES","type":"education","lineage":["https://openalex.org/I123044942"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Xavier Daura","raw_affiliation_strings":["Catalan Institution for Research and Advanced Studies (ICREA) , Barcelona 08010, Spain","Institute of Biotechnology and Biomedicine, Universitat Aut\u00f2noma de Barcelona , Barcelona 08193, Spain"],"raw_orcid":"https://orcid.org/0000-0001-9235-6730","affiliations":[{"raw_affiliation_string":"Catalan Institution for Research and Advanced Studies (ICREA) , Barcelona 08010, Spain","institution_ids":["https://openalex.org/I11932220"]},{"raw_affiliation_string":"Institute of Biotechnology and Biomedicine, Universitat Aut\u00f2noma de Barcelona , Barcelona 08193, Spain","institution_ids":["https://openalex.org/I123044942"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5027747641","https://openalex.org/A5061156690"],"corresponding_institution_ids":["https://openalex.org/I11932220","https://openalex.org/I123044942","https://openalex.org/I4210164457"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.8131,"has_fulltext":true,"cited_by_count":18,"citation_normalized_percentile":{"value":0.69324243,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":98},"biblio":{"volume":"37","issue":"16","first_page":"2365","last_page":"2373"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9745000004768372,"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":0.9745000004768372,"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/T12867","display_name":"Advanced Biosensing Techniques and Applications","score":0.006000000052154064,"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":0.0017000000225380063,"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/normalization","display_name":"Normalization (sociology)","score":0.8170180916786194},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7512263655662537},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.6932673454284668},{"id":"https://openalex.org/keywords/database-normalization","display_name":"Database normalization","score":0.5313974618911743},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.522259533405304},{"id":"https://openalex.org/keywords/benchmark","display_name":"Benchmark (surveying)","score":0.49199172854423523},{"id":"https://openalex.org/keywords/standardization","display_name":"Standardization","score":0.471090167760849},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.35987257957458496},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.22377800941467285},{"id":"https://openalex.org/keywords/cluster-analysis","display_name":"Cluster analysis","score":0.1226663887500763}],"concepts":[{"id":"https://openalex.org/C136886441","wikidata":"https://www.wikidata.org/wiki/Q926129","display_name":"Normalization (sociology)","level":2,"score":0.8170180916786194},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7512263655662537},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.6932673454284668},{"id":"https://openalex.org/C162984825","wikidata":"https://www.wikidata.org/wiki/Q339072","display_name":"Database normalization","level":3,"score":0.5313974618911743},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.522259533405304},{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.49199172854423523},{"id":"https://openalex.org/C188087704","wikidata":"https://www.wikidata.org/wiki/Q369577","display_name":"Standardization","level":2,"score":0.471090167760849},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.35987257957458496},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.22377800941467285},{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.1226663887500763},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.0},{"id":"https://openalex.org/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0},{"id":"https://openalex.org/C19165224","wikidata":"https://www.wikidata.org/wiki/Q23404","display_name":"Anthropology","level":1,"score":0.0},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btab105","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab105","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/37/16/2365/39950152/btab105.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:33609102","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33609102","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":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:8388031","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8388031","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:ddd.uab.cat:255303","is_oa":true,"landing_page_url":"https://ddd.uab.cat/record/255303","pdf_url":null,"source":{"id":"https://openalex.org/S4306400380","display_name":"Dip\u00f2sit Digital de Documents de la UAB (Universitat Aut\u00f2noma de Barcelona)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I123044942","host_organization_name":"Universitat Aut\u00f2noma de Barcelona","host_organization_lineage":["https://openalex.org/I123044942"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btab105","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab105","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/37/16/2365/39950152/btab105.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G6761937971","display_name":"COmbatting disorders of adaptive immunity with Systems MedICine","funder_award_id":"765158","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"}],"funders":[{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3131617795.pdf","grobid_xml":"https://content.openalex.org/works/W3131617795.grobid-xml"},"referenced_works_count":41,"referenced_works":["https://openalex.org/W1542823905","https://openalex.org/W1629202041","https://openalex.org/W1970156673","https://openalex.org/W1984708728","https://openalex.org/W1987347990","https://openalex.org/W1987971958","https://openalex.org/W1995608074","https://openalex.org/W1999687329","https://openalex.org/W2010637767","https://openalex.org/W2018840144","https://openalex.org/W2037970736","https://openalex.org/W2064397275","https://openalex.org/W2069230139","https://openalex.org/W2070494252","https://openalex.org/W2082793779","https://openalex.org/W2100668965","https://openalex.org/W2105381419","https://openalex.org/W2107665951","https://openalex.org/W2113310577","https://openalex.org/W2119821739","https://openalex.org/W2133707124","https://openalex.org/W2134787419","https://openalex.org/W2139345901","https://openalex.org/W2150593711","https://openalex.org/W2158698691","https://openalex.org/W2162871532","https://openalex.org/W2167530307","https://openalex.org/W2168113705","https://openalex.org/W2170989872","https://openalex.org/W2187089797","https://openalex.org/W2589905837","https://openalex.org/W2620760558","https://openalex.org/W2755504031","https://openalex.org/W2768591110","https://openalex.org/W2795960027","https://openalex.org/W2921304627","https://openalex.org/W2979670403","https://openalex.org/W2999159290","https://openalex.org/W3101813170","https://openalex.org/W4239510810","https://openalex.org/W4252553827"],"related_works":["https://openalex.org/W2145362441","https://openalex.org/W2582603276","https://openalex.org/W2000153057","https://openalex.org/W2175373041","https://openalex.org/W4386281023","https://openalex.org/W4312138714","https://openalex.org/W2113286112","https://openalex.org/W3102910059","https://openalex.org/W2904308980","https://openalex.org/W2122350171"],"abstract_inverted_index":{"MOTIVATION:":[0],"Cross-(multi)platform":[1],"normalization":[2,82,174,252],"of":[3,14,28,41,53,114,126,147],"gene-expression":[4,86],"microarray":[5,93,115],"data":[6,67,116,131,303],"remains":[7],"an":[8,162,202],"unresolved":[9],"issue.":[10],"Despite":[11],"the":[12,22,39,54,58,112,124,145,148,178,262,274,280],"existence":[13],"several":[15],"algorithms,":[16],"they":[17],"are":[18,254,304],"either":[19],"constrained":[20],"by":[21,36,47],"need":[23],"to":[24,38,79,129,150,171,284],"normalize":[25],"all":[26,29],"samples":[27,153],"platforms":[30,40,98,287],"together,":[31],"compromising":[32],"scalability":[33],"and":[34,99,180,196,199,239,271],"reuse,":[35],"adherence":[37],"a":[42,81,169,240],"specific":[43],"provider,":[44],"or":[45,139],"simply":[46],"poor":[48],"performance.":[49],"In":[50],"addition,":[51],"many":[52,249],"methods":[55,70,253],"presented":[56],"in":[57,72,104,118,257,265,288],"literature":[59],"have":[60],"not":[61,255],"been":[62],"specifically":[63,192],"tested":[64],"against":[65,183,212],"multi-platform":[66],"and/or":[68],"other":[69,250],"applicable":[71,103,256],"this":[73,165,258,266,289],"context.":[74,259],"Thus,":[75],"we":[76,186,209],"set":[77],"out":[78],"develop":[80],"algorithm":[83,149,163,179,264],"appropriate":[84],"for":[85,121,123,141,194],"studies":[87,106],"based":[88],"on":[89,144],"multiple,":[90],"potentially":[91],"large":[92],"sets":[94],"collected":[95],"along":[96],"multiple":[97],"at":[100,108,306],"different":[101,155,286],"times,":[102],"systematic":[105],"aimed":[107],"extracting":[109],"knowledge":[110],"from":[111,132,154,201,282,298],"wealth":[113],"available":[117,305],"public":[119],"repositories;":[120],"example,":[122],"extraction":[125],"Real-World":[127],"Data":[128],"complement":[130],"Randomized":[133],"Controlled":[134],"Trials.":[135],"Our":[136],"main":[137],"focus":[138],"criterion":[140],"performance":[142],"was":[143,261],"capacity":[146],"properly":[151],"separate":[152],"biological":[156,276],"groups.":[157],"RESULTS:":[158],"We":[159,246],"present":[160],"CuBlock,":[161],"addressing":[164],"objective,":[166],"together":[167],"with":[168],"strategy":[170],"validate":[172,177],"cross-platform":[173],"methods.":[175],"To":[176],"benchmark":[181],"it":[182],"existing":[184],"methods,":[185],"used":[187],"two":[188],"distinct":[189],"datasets,":[190,208],"one":[191,200],"generated":[193],"testing":[195],"standardization":[197],"purposes":[198],"actual":[203],"experimental":[204],"study.":[205,290],"Using":[206],"these":[207],"benchmarked":[210],"CuBlock":[211,260,294],"ComBat":[213],"(Johnson":[214],"et":[215,220,226,231,236],"al.,":[216,221,227,232,237],"2007),":[217],"UPC":[218],"(Piccolo":[219],"2013),":[222],"YuGene":[223],"(L\u00ea":[224],"Cao":[225],"2014),":[228],"DBNorm":[229],"(Meng":[230],"2017),":[233],"Shambhala":[234],"(Borisov":[235],"2019)":[238],"simple":[241],"log2":[242],"transform":[243],"as":[244],"reference.":[245],"note":[247],"that":[248,268],"popular":[251],"only":[263],"group":[267],"could":[269],"always":[270],"clearly":[272],"differentiate":[273],"underlying":[275],"groups":[277],"after":[278],"mixing":[279],"data,":[281],"up":[283],"six":[285],"AVAILABILITY":[291],"AND":[292],"IMPLEMENTATION:":[293],"can":[295],"be":[296],"downloaded":[297],"https://www.mathworks.com/matlabcentral/fileexchange/77882-cublock.":[299],"SUPPLEMENTARY":[300],"INFORMATION:":[301],"Supplementary":[302],"Bioinformatics":[307],"online.":[308]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":5},{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":4}],"updated_date":"2026-08-11T07:18:39.950985","created_date":"2025-10-10T00:00:00"}
