{"id":"https://openalex.org/W2108274528","doi":"https://doi.org/10.1093/bib/bbn033","title":"Methods in Microarray Normalization. * Edited by Phillip Stafford","display_name":"Methods in Microarray Normalization. * Edited by Phillip Stafford","publication_year":2008,"publication_date":"2008-07-11","ids":{"openalex":"https://openalex.org/W2108274528","doi":"https://doi.org/10.1093/bib/bbn033","mag":"2108274528"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbn033","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbn033","pdf_url":"https://academic.oup.com/bib/article-pdf/9/6/545/598135/bbn033.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"book-review","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bib/article-pdf/9/6/545/598135/bbn033.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5105691035","display_name":"Jean\u2010Jacques Daudin","orcid":null},"institutions":[{"id":"https://openalex.org/I22248866","display_name":"AgroParisTech","ror":"https://ror.org/02kbmgc12","country_code":"FR","type":"education","lineage":["https://openalex.org/I22248866","https://openalex.org/I277688954"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"J.J. Daudin","raw_affiliation_strings":["AgroParisTech","AgroParisTech,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"AgroParisTech","institution_ids":["https://openalex.org/I22248866"]},{"raw_affiliation_string":"AgroParisTech,","institution_ids":["https://openalex.org/I22248866"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5105691035"],"corresponding_institution_ids":["https://openalex.org/I22248866"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":null,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":"9","issue":"6","first_page":"545","last_page":"546"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9603000283241272,"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":0.9603000283241272,"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":0.8058809041976929},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4712282419204712},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3438609838485718},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.16846781969070435},{"id":"https://openalex.org/keywords/sociology","display_name":"Sociology","score":0.035457491874694824}],"concepts":[{"id":"https://openalex.org/C136886441","wikidata":"https://www.wikidata.org/wiki/Q926129","display_name":"Normalization (sociology)","level":2,"score":0.8058809041976929},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4712282419204712},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3438609838485718},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.16846781969070435},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.035457491874694824},{"id":"https://openalex.org/C19165224","wikidata":"https://www.wikidata.org/wiki/Q23404","display_name":"Anthropology","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1093/bib/bbn033","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbn033","pdf_url":"https://academic.oup.com/bib/article-pdf/9/6/545/598135/bbn033.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"}],"best_oa_location":{"id":"doi:10.1093/bib/bbn033","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbn033","pdf_url":"https://academic.oup.com/bib/article-pdf/9/6/545/598135/bbn033.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2108274528.pdf","grobid_xml":"https://content.openalex.org/works/W2108274528.grobid-xml"},"referenced_works_count":0,"referenced_works":[],"related_works":[],"abstract_inverted_index":{"This":[0,133,516,731,875],"book":[1,45,124,134,856,974],"is":[2,135,244,285,325,353,525,545,574,681,698,732,740,755,807,829,876,883,930,948,975,1022,1078],"a":[3,71,97,100,114,126,214,239,252,314,388,463,497,551,578,705,717,733,786,795,809,821,863,1000,1036],"set":[4,405,811],"of":[5,13,29,44,54,66,74,82,89,99,116,122,189,205,223,251,261,276,341,349,406,432,438,469,475,505,522,533,539,556,606,652,665,694,707,710,722,750,774,789,803,812,824,842,854,970,982,985,1026,1039,1041,1067],"11":[6,833],"chapters":[7,56,118,161,768,951,1013],"written":[8,744,957],"by":[9,294,446],"different":[10,369,482,511,513],"authors.":[11,296],"Most":[12],"the":[14,49,55,64,67,80,83,87,90,117,120,123,131,143,146,152,163,187,190,194,202,221,224,228,232,249,259,267,295,333,338,342,347,378,397,404,407,417,425,429,433,436,439,447,503,506,520,523,531,537,540,558,582,592,604,627,630,637,692,708,720,725,748,751,753,772,790,801,825,855,867,907,917,935,943,946,967,980,983,1024,1045,1068],"authors":[15,426,451,610],"are":[16,57,94,159,209,307,359,414,442,491,510,588,602,673,769,940,952,964],"academic":[17],"researchers":[18],"from":[19,142],"medicine,":[20],"genetics,":[21],"bioinformatics":[22,240,908],"or":[23,472,990],"computer":[24],"science":[25],"departments":[26],"and":[27,37,52,92,125,179,181,199,227,246,305,374,394,413,422,435,459,553,581,598,612,663,668,704,781,797,840,903,925,955,958,988,1017,1028],"some":[28,674,950],"them":[30,466],"work":[31],"for":[32,70,139,150,155,166,170,174,220,270,300,322,384,387,411,420,462,512,622,678,691,800,836,844,872,1053],"private":[33],"corporations":[34],"(Affymetrix,":[35],"Agilent":[36],"GeneGo).":[38],"As":[39],"usual":[40],"with":[41,46,113,213,313,615,794,862],"this":[42,242,277,738,881,973,1015],"type":[43,73],"many":[47,489],"authors,":[48],"orientation,":[50],"level":[51,969],"content":[53,233,538,947],"very":[58,481,734,742,931,953],"different.":[59],"Some":[60],"aim":[61],"at":[62,107,119,130,747,966],"presenting":[63,685],"state-of-the-art":[65],"normalization":[68,102,164,191,198,253,269,334,370,448,457,514,693,773,826,984,1077],"procedures":[69,165],"given":[72],"microarray,":[75],"others":[76,93,963],"attempt":[77],"to":[78,96,145,403,453,460,493,644,684,719,759,771,890,893,979,1003,1044],"study":[79,544],"impact":[81],"pretreatment":[84],"step":[85,192],"on":[86,193,258,289,562,567,654,866],"results":[88,434],"analysis,":[91],"restricted":[95],"presentation":[98,109,243],"new":[101,620,688],"procedure.":[103],"However,":[104,671],"an":[105,976],"effort":[106],"global":[108],"has":[110,234,255,1049,1070],"been":[111,236,1050,1071],"made":[112,138],"summary":[115],"beginning":[121,144],"general":[127,184,281],"index":[128],"table":[129],"end.":[132],"clearly":[136,308,884],"not":[137,335,415,603,635,659,741,756,941,965,996],"complete":[140,864],"reading":[141],"end,":[147],"but":[148,279,345,817,928,962],"rather":[149],"picking":[151],"information":[153,905,933],"useful":[154,245,1052],"each":[156,385],"reader.":[157],"There":[158,806],"two":[160,391],"about":[162,183,266,530,550,699,814,934],"cDNA":[167,206,271],"microarrays,":[168,272],"three":[169,173,182,368,480,767,937],"Affymetrix":[171,301,323,791,845],"arrays,":[172,778,816],"specific":[175,291,775,822,904],"microarrays":[176],"(CGH,":[177],"Exons":[178],"SNP)":[180],"analysis":[185,555,596,721,788,802,994],"describing":[186],"consequences":[188,257],"biological":[195,262],"findings.":[196],"The":[197,297,450,477,572,609,765,850,886,910,1007,1059],"more":[200,528,687,901,989],"generally":[201],"preprocessing":[203,218,298,560],"steps":[204,219,299],"microarray":[207,534,713,873,897,1030],"data":[208,559,570,623,656,898],"presented":[210,237],"(Chapter":[211],"5),":[212],"comparison":[215,389],"between":[216,390,465,591,676],"14":[217],"correction":[222],"intensity":[225],"dependent":[226],"spatial":[229,268],"bias.":[230],"Although":[231],"already":[235,808],"in":[238,310,327,416,467,473,547,712,757,906,920,942,1011,1014,1019,1035,1056],"journal,":[241],"shows":[247,273,331],"that":[248,332,428,488,502,519,617,858,914,1023,1074],"choice":[250],"procedure":[254],"important":[256,960,1008],"classification":[260],"samples.":[263],"Chapter":[264,311,328,548,679,696,783,818,832,1020],"4,":[265],"impressive":[274],"images":[275],"bias":[278,1069],"lacks":[280],"coverage":[282],"as":[283,999],"it":[284,859,915],"too":[286],"much":[287,527],"focused":[288],"one":[290,686],"method":[292,632,690],"proposed":[293],"arrays":[302,324,776,793],"(RMA,":[303],"GCRMA":[304],"MAS5.0)":[306],"described":[309,326,546],"3,":[312],"short":[315],"case":[316],"study.":[317,764],"A":[318,542],"cross-normalization":[319],"comparisons":[320],"experiment":[321,478,600],"7.":[329],"It":[330,715],"only":[336,360,660,877],"changes":[337],"actual":[339],"value":[340],"individual":[343],"probes":[344,363,380,401,410,490,509],"also":[346,443],"order":[348],"these":[350],"values":[351],"which":[352,499,828,939,1048],"drastically":[354],"modified.":[355],"For":[356],"example,":[357],"there":[358,587,672,929],"26":[361],"common":[362],"declared":[364],"differentially":[365,382,495,563],"expressed,":[366,496],"using":[367,577],"methods":[371,458,835],"(GC-RMA,":[372],"MAS5.0":[373],"PLIER),":[375],"after":[376],"keeping":[377],"1000":[379,409,508],"most":[381,868,1066],"expressed":[383,564],"method,":[386,586],"conditions":[392,483],"(lung":[393],"spleen).":[395],"In":[396],"same":[398,583,911,968],"experiment,":[399],"903":[400],"pertain":[402],"first":[408,507,936],"GC-RMA":[412],"corresponding":[418],"sets":[419,657],"PLIER":[421],"MAS5.0.":[423],"Moreover,":[424],"show":[427],"GO":[430,470],"interpretation":[431],"ratios":[437],"housekeeping":[440],"genes":[441],"strongly":[444],"modified":[445],"method.":[449],"propose":[452],"use":[454],"successively":[455],"several":[456,1012],"look":[461],"consensus":[464],"terms":[468,474],"classes":[471],"pathways.":[476],"compares":[479],"(liver,":[484],"spleen,":[485],"lung),":[486],"so":[487,745,1051,1073],"expected":[492],"be":[494,642,997,1033,1062],"fact":[498],"may":[500],"explain":[501],"lists":[504],"methods.":[515],"perhaps":[517],"explains":[518],"conclusion":[521,573],"chapter":[524,739],"strangely":[526],"positive":[529],"quality":[532,728,1054],"experiments":[535,1031],"than":[536],"chapter.":[541],"similar":[543,1043],"1":[549],"systematic":[552],"comprehensive":[554],"all":[557],"stages":[561],"gene":[565],"selection":[566,585],"multiple":[568],"human":[569,847],"sets.":[571],"that,":[575,746],"even":[576],"single":[579],"platform":[580],"statistical":[584,689,993],"substantial":[589],"discrepancies":[590],"results.":[593],"Therefore,":[594],"\u2018statistical":[595],"techniques":[597,667],"inter-laboratory":[599],"protocols":[601],"causes":[605],"cross-platform":[607],"disparities\u2019.":[608],"claim,":[611],"I":[613],"agree":[614],"them,":[616],"\u2018just":[618],"developing":[619],"algorithms":[621],"preprocessing,":[624],"without":[625],"addressing":[626],"reasons":[628],"why":[629],"current":[631],"fail,":[633],"will":[634,899,1061],"solve":[636],"problems":[638],"\u2026":[639,1075],"efforts":[640],"should":[641,995,1032],"directed":[643],"improved":[645],"chip":[646],"design,":[647],"large":[648,810],"sample":[649],"sizes,":[650],"evaluation":[651,666],"tools":[653,870],"real-life":[655],"(and":[658],"calibration":[661],"ones)":[662],"standardization":[664],"laboratory":[669],"protocols\u2019.":[670],"contradictions":[675],"chapters,":[677],"2":[680],"especially":[682,1018],"devoted":[683,770],"microarrays.":[695,986],"6":[697],"cross-laboratory":[700],"expression":[701,924],"array":[702,779],"concordance":[703],"modeling":[706],"sources":[709],"variation":[711],"experiments.":[714,1006],"provides":[716],"guide":[718],"reproducibility,":[723],"like":[724],"MAQC":[726],"(microarray":[727],"control)":[729],"project.":[730],"good":[735],"idea.":[736],"Unfortunately,":[737],"well":[743,956],"end":[749],"chapter,":[752],"reader":[754],"position":[758],"make":[760],"his":[761,895],"own":[762,896],"reproducibility":[763],"last":[766,851],"(exon":[777],"CGH":[780,815],"SNP).":[782],"9":[784],"contains":[785],"detailed":[787],"exon":[792],"clear":[796,954],"valuable":[798],"workflow":[799],"such":[804],"data.":[805],"publications":[813],"10":[819],"describes":[820,834],"part":[823],"step,":[827],"called":[830],"centralization.":[831],"estimating":[837],"copy":[838],"number":[839],"loss":[841],"heterozygosity":[843],"GenChip":[846],"mapping":[848],"arrays.":[849],"cover":[852],"page":[853,912],"claims":[857,913],"\u2018provides":[860],"scientists":[861],"resource":[865],"effective":[869],"available":[871],"data\u2019.":[874],"partially":[878],"true":[879],"because":[880],"task":[882],"impossible.":[885],"scientist":[887],"who":[888],"wants":[889],"know":[891],"how":[892],"normalize":[894],"find":[900],"precise":[902],"journals.":[909],"\u2018reviews":[916],"latest":[918],"advances":[919],"peptide,":[921],"glycol,":[922],"antibody":[923],"SNP":[926],"microarrays\u2019,":[927],"little":[932],"topics":[938],"index.":[944],"Moreover":[945],"uneven:":[949],"give":[959],"messages,":[961],"quality.":[971],"Overall":[972],"interesting":[977],"contribution":[978],"topic":[981],"Preprocessing":[987],"less":[991],"complicated":[992],"considered":[998],"rescue":[1001],"operation":[1002],"save":[1004],"ailing":[1005],"message":[1009],"contained":[1010],"book,":[1016],"1,":[1021],"process":[1025,1038,1060],"designing":[1027],"analyzing":[1029],"included":[1034],"continuous":[1037],"improvement":[1040,1055],"quality,":[1042],"Deming":[1046],"Wheel,":[1047],"industrial":[1057],"corporations.":[1058],"completely":[1063],"successful":[1064],"when":[1065],"removed,":[1072],"no":[1076],"necessary.":[1079]},"counts_by_year":[{"year":2013,"cited_by_count":1}],"updated_date":"2026-07-30T17:31:21.811387","created_date":"2025-10-10T00:00:00"}
