{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,30]],"date-time":"2025-10-30T06:57:00Z","timestamp":1761807420977},"reference-count":30,"publisher":"Public Library of Science (PLoS)","issue":"2","license":[{"start":{"date-parts":[[2008,2,29]],"date-time":"2008-02-29T00:00:00Z","timestamp":1204243200000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["www.ploscompbiol.org"],"crossmark-restriction":false},"short-container-title":["PLoS Comput Biol"],"DOI":"10.1371\/journal.pcbi.0040006","type":"journal-article","created":{"date-parts":[[2008,2,23]],"date-time":"2008-02-23T03:06:44Z","timestamp":1203736004000},"page":"e6","update-policy":"http:\/\/dx.doi.org\/10.1371\/journal.pcbi.corrections_policy","source":"Crossref","is-referenced-by-count":34,"title":["Comprehensive Analysis of Affymetrix Exon Arrays Using BioConductor"],"prefix":"10.1371","volume":"4","author":[{"given":"Micha\u0142 J","family":"Okoniewski","sequence":"first","affiliation":[]},{"given":"Crispin J","family":"Miller","sequence":"additional","affiliation":[]}],"member":"340","published-online":{"date-parts":[[2008,2,29]]},"reference":[{"key":"ref1","doi-asserted-by":"crossref","first-page":"R80","DOI":"10.1186\/gb-2004-5-10-r80","article-title":"Bioconductor: open software development for computational biology and bioinformatics.","volume":"5","author":"RC Gentleman","year":"2004","journal-title":"Genome Biol"},{"key":"ref2","doi-asserted-by":"crossref","DOI":"10.1007\/0-387-29362-0","article-title":"Bioinformatics and computational biology solutions using R and Bioconductor","author":"R Gentleman","year":"2005"},{"key":"ref3","doi-asserted-by":"crossref","DOI":"10.1007\/978-0-387-21856-4","article-title":"S programming","author":"WN Venables","year":"2000"},{"key":"ref4","article-title":"R-Development-core-team. The R Manuals"},{"key":"ref5","doi-asserted-by":"crossref","first-page":"13","DOI":"10.1038\/ng0102-13","article-title":"A genomic view of alternative splicing.","volume":"30","author":"B Modrek","year":"2002","journal-title":"Nat Genet"},{"key":"ref6","doi-asserted-by":"crossref","first-page":"2141","DOI":"10.1126\/science.1090100","article-title":"Genome-wide survey of human alternative pre-mRNA splicing with exon junction microarrays.","volume":"302","author":"JM Johnson","year":"2003","journal-title":"Science"},{"key":"ref7","doi-asserted-by":"crossref","first-page":"378","DOI":"10.1002\/bies.20390","article-title":"Unbalanced alternative splicing and its significance in cancer.","volume":"28","author":"JP Venables","year":"2006","journal-title":"Bioessays"},{"key":"ref8","doi-asserted-by":"crossref","first-page":"419","DOI":"10.1101\/gad.1048803","article-title":"Pre-mRNA splicing and human disease.","volume":"17","author":"NA Faustino","year":"2003","journal-title":"Genes Dev"},{"key":"ref9","article-title":"Affymetrix"},{"key":"ref10","doi-asserted-by":"crossref","first-page":"3","DOI":"10.1016\/S0076-6879(06)10001-4","article-title":"The Affymetrix GeneChip platform: An overview.","volume":"410","author":"Dalma-Weiszhausz","year":"2006","journal-title":"Methods Enzymol"},{"key":"ref11","doi-asserted-by":"crossref","first-page":"181","DOI":"10.2144\/000112315","article-title":"High correspondence between Affymetrix exon and standard expression arrays.","volume":"42","author":"MJ Okoniewski","year":"2007","journal-title":"Biotechniques"},{"key":"ref12","first-page":"1","article-title":"A core lab case study: Exon array challenges and opportunities.","volume":"1","author":"SD Pepper","year":"2006","journal-title":"Affymetrix Core Lab Communication Bulletin"},{"key":"ref13","doi-asserted-by":"crossref","first-page":"e15","DOI":"10.1093\/nar\/gng015","article-title":"Summaries of Affymetrix GeneChip probe level data.","volume":"31","author":"RA Irizarry","year":"2003","journal-title":"Nucleic Acids Res"},{"key":"ref14","article-title":"Gene signal estimates from exon arrays.","year":"2005"},{"key":"ref15","doi-asserted-by":"crossref","first-page":"R82","DOI":"10.1186\/gb-2007-8-5-r82","article-title":"Exon array assessment of gene expression.","volume":"8","author":"K Kapur","year":"2007","journal-title":"Genome Biology"},{"key":"ref16","doi-asserted-by":"crossref","first-page":"1593","DOI":"10.1093\/bioinformatics\/18.12.1593","article-title":"Analysis of high density expression microarrays with signed-rank call algorithms.","volume":"18","author":"WM Liu","year":"2002","journal-title":"Bioinformatics"},{"key":"ref17","article-title":"Exon array background Correction.","year":"2005"},{"key":"ref18","doi-asserted-by":"crossref","first-page":"343","DOI":"10.1016\/S0895-4356(00)00314-0","article-title":"Adjusting for multiple testing\u2014When and how.","volume":"54","author":"R Bender","year":"2001","journal-title":"J Clin Epidemiol"},{"key":"ref19","doi-asserted-by":"crossref","first-page":"e175","DOI":"10.1093\/nar\/gni179","article-title":"Evolving gene\/transcript definitions significantly alter the interpretation of GeneChip data.","volume":"33","author":"M Dai","year":"2005","journal-title":"Nucleic Acids Res"},{"key":"ref20","doi-asserted-by":"crossref","first-page":"108","DOI":"10.1186\/1471-2105-8-108","article-title":"Transcript-based redefinition of grouped oligonucleotide probe sets using AceView: High-resolution annotation for microarrays.","volume":"8","author":"J Lu","year":"2007","journal-title":"BMC Bioinformatics"},{"key":"ref21","doi-asserted-by":"crossref","first-page":"D610","DOI":"10.1093\/nar\/gkl996","article-title":"Ensembl 2007.","volume":"35","author":"TJ Hubbard","year":"2007","journal-title":"Nucleic Acids Res"},{"key":"ref22","article-title":"X:MAP"},{"key":"ref23","doi-asserted-by":"crossref","first-page":"R79","DOI":"10.1186\/gb-2007-8-5-r79","article-title":"An annotation infrastructure for the analysis and interpretation of Affymetrix exon array data.","volume":"8","author":"MJ Okoniewski","year":"2007","journal-title":"Genome Biology"},{"key":"ref24","article-title":"CDF metadata packages for exonmap"},{"key":"ref25","article-title":"Paterson Institute for Cancer Research Bioinformatics Group Homepage"},{"key":"ref26","article-title":"Guide to probe logarithmic intensity error (PLIER) estimation.","year":"2005"},{"key":"ref27"},{"key":"ref28","doi-asserted-by":"crossref","first-page":"325","DOI":"10.1186\/1471-2164-7-325","article-title":"Alternative splicing and differential gene expression in colon cancer detected by a whole genome exon array.","volume":"7","author":"P Gardina","year":"2006","journal-title":"BMC Genomics"},{"key":"ref29","doi-asserted-by":"crossref","first-page":"R64","DOI":"10.1186\/gb-2007-8-4-r64","article-title":"Discovery of tissue-specific exons using comprehensive human exon microarrays.","volume":"8","author":"T Clark","year":"2007","journal-title":"Genome Biology"},{"key":"ref30","article-title":"Array design for the GeneChip human genome 133 Set.","year":"2001"}],"container-title":["PLoS Computational Biology"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/dx.plos.org\/10.1371\/journal.pcbi.0040006","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2018,10,23]],"date-time":"2018-10-23T20:49:30Z","timestamp":1540327770000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pcbi.0040006"}},"subtitle":[],"editor":[{"given":"Fran","family":"Lewitter","sequence":"first","affiliation":[]}],"short-title":[],"issued":{"date-parts":[[2008,2,29]]},"references-count":30,"journal-issue":{"issue":"2","published-online":{"date-parts":[[2008,2,29]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pcbi.0040006","relation":{},"ISSN":["1553-7358"],"issn-type":[{"value":"1553-7358","type":"electronic"}],"subject":[],"published":{"date-parts":[[2008,2,29]]}}}