{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2022,3,31]],"date-time":"2022-03-31T15:49:55Z","timestamp":1648741795470},"reference-count":46,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2008,12,1]],"date-time":"2008-12-01T00:00:00Z","timestamp":1228089600000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/2.0"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["BMC Bioinformatics"],"published-print":{"date-parts":[[2008,12]]},"DOI":"10.1186\/1471-2105-9-512","type":"journal-article","created":{"date-parts":[[2008,12,2]],"date-time":"2008-12-02T04:27:38Z","timestamp":1228192058000},"source":"Crossref","is-referenced-by-count":4,"title":["A Bayesian calibration model for combining different pre-processing methods in Affymetrix chips"],"prefix":"10.1186","volume":"9","author":[{"given":"Marta","family":"Blangiardo","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Sylvia","family":"Richardson","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2008,12,1]]},"reference":[{"issue":"2","key":"2497_CR1","doi-asserted-by":"publisher","first-page":"185","DOI":"10.1093\/bioinformatics\/19.2.185","volume":"19","author":"B Bolstad","year":"2003","unstructured":"Bolstad B, Irizarry R, Astrand M, Speed T: A comparison of normalization methods for high density oligonucleotide array data based on variance and bias. Bioinformatics 2003, 19(2):185\u2013193. 10.1093\/bioinformatics\/19.2.185","journal-title":"Bioinformatics"},{"issue":"3","key":"2497_CR2","doi-asserted-by":"publisher","first-page":"55","DOI":"10.1093\/bioinformatics\/btg410","volume":"20","author":"L Cope","year":"2004","unstructured":"Cope L, Irizarry R, Jaffee H, Wu Z, Speed T: A benchmark for Affymetrix genechip expression measures. Bioinformatics 2004, 20(3):55\u201365. 10.1093\/bioinformatics\/btg410","journal-title":"Bioinformatics"},{"key":"2497_CR3","doi-asserted-by":"publisher","first-page":"55","DOI":"10.1038\/nrg1749","volume":"7","author":"D Allison","year":"2006","unstructured":"Allison D, Cui X, Page G, Sabripour M: Microarray data analysis: from disarray to consolidation and consensus. Nature Reviews 2006, 7: 55\u201365. 10.1038\/nrg1749","journal-title":"Nature Reviews"},{"key":"2497_CR4","doi-asserted-by":"crossref","unstructured":"Hein A, Richardson S, Causton H, Ambler G, Green P: BGX: a fully Bayesian integrated approach to the analysis of Affymetrix GeneChip data. Biostatistics 2005., 6(3):","DOI":"10.1093\/biostatistics\/kxi016"},{"key":"2497_CR5","doi-asserted-by":"publisher","first-page":"439","DOI":"10.1186\/1471-2105-8-439","volume":"8","author":"E Turro","year":"2007","unstructured":"Turro E, Bochkina N, Hein A, Richardson S: BGX: a Bioconductor package for the Bayesian integrated analysis of Affymetrix GeneChips. BMC Bioinformatics 2007, 8: 439. 10.1186\/1471-2105-8-439","journal-title":"BMC Bioinformatics"},{"key":"2497_CR6","first-page":"i84","volume-title":"Bioinformatics","author":"J Choi","year":"2003","unstructured":"Choi J, Yu U, Kim S, Yoo O: Combining multiple microarray studies and modelling inter-study variation. Bioinformatics 2003, i84-i90. 10.1093\/bioinformatics\/btg1010"},{"issue":"81","key":"2497_CR7","doi-asserted-by":"publisher","first-page":"2922","DOI":"10.1158\/1078-0432.CCR-03-0490","volume":"5","author":"G Parmigiani","year":"2004","unstructured":"Parmigiani G, Garrett-Mayer E, Anbazhagan R, Gabrielson E: A cross-study comparison of gene expression studies for the molecular classification of lung cancer. Clinical Cancer Research 2004, 5(81):2922\u20132927. 10.1158\/1078-0432.CCR-03-0490","journal-title":"Clinical Cancer Research"},{"key":"2497_CR8","doi-asserted-by":"publisher","first-page":"247","DOI":"10.1186\/1471-2105-7-247","volume":"7","author":"E Conlon","year":"2006","unstructured":"Conlon E, Song J, Liu J: Bayesian models for pooling microarray studies with multiple sources of replications. BMC Bioinformatics 2006, 7: 247. 10.1186\/1471-2105-7-247","journal-title":"BMC Bioinformatics"},{"key":"2497_CR9","doi-asserted-by":"publisher","first-page":"80","DOI":"10.1186\/1471-2105-8-80","volume":"8","author":"E Conlon","year":"2007","unstructured":"Conlon E, Song J, Liu J: Bayesian meta-analysis models for microarray data: a comparative study. BMC Bioinformatics 2007, 8: 80. 10.1186\/1471-2105-8-80","journal-title":"BMC Bioinformatics"},{"key":"2497_CR10","first-page":"1","volume":"158","author":"R Scharpf","year":"2008","unstructured":"Scharpf R, Tjelmeland H, Parmigiani G, Nobel A: A Bayesian model for cross-study differential gene expression. Johns Hopkins University, Dept of Biostatistics Working Papers 2008, 158: 1\u201342. [\n                    http:\/\/www.bepress.com\/jhubiostat\/paper158\n                    \n                  ]","journal-title":"Johns Hopkins University, Dept of Biostatistics Working Papers"},{"key":"2497_CR11","first-page":"1084","volume-title":"Bioinformatics","author":"Y Yang","year":"2005","unstructured":"Yang Y, Xiao Y, Segal M: Identifying differentially expressed genes from microarray experiments via statistic synthesis. Bioinformatics 2005, 1084\u20131093."},{"key":"2497_CR12","doi-asserted-by":"publisher","first-page":"1075","DOI":"10.1002\/sim.4780080907","volume":"9","author":"R Carroll","year":"1989","unstructured":"Carroll R: Covariance analysis in generalized linear measurement error models. Statistics in Medicine 1989, 9: 1075\u20131093. 10.1002\/sim.4780080907","journal-title":"Statistics in Medicine"},{"key":"2497_CR13","doi-asserted-by":"crossref","first-page":"1176","DOI":"10.1093\/oxfordjournals.aje.a115761","volume":"132","author":"B Armstrong","year":"1991","unstructured":"Armstrong B: The effects of measurement error on relative risks regression. American Journal of Epidemiology 1991, 132: 1176\u20131184.","journal-title":"American Journal of Epidemiology"},{"key":"2497_CR14","doi-asserted-by":"publisher","DOI":"10.1007\/978-1-4899-4477-1","volume-title":"Measurement error in nonlinear models","author":"R Carroll","year":"1995","unstructured":"Carroll R, Ruppert D, Stefanski L: Measurement error in nonlinear models. Chapman & Hall, London; 1995."},{"key":"2497_CR15","volume-title":"Measurement error and misclassification in statistics and epidemiology","author":"P Gustafson","year":"2004","unstructured":"Gustafson P: Measurement error and misclassification in statistics and epidemiology. Chapman & Hall\/CRC, New York; 2004."},{"key":"2497_CR16","volume-title":"Technical report, Department of Preventive Medicine, University of Southern California","author":"D Thomas","year":"1991","unstructured":"Thomas D, Gauderman W, Kerber R: A non-parametric Monte Carlo approach to adjustment for covariate measurement errors in regression problems. Technical report, Department of Preventive Medicine, University of Southern California 1991."},{"key":"2497_CR17","doi-asserted-by":"crossref","first-page":"430","DOI":"10.1093\/oxfordjournals.aje.a116875","volume":"138","author":"S Richardson","year":"1993","unstructured":"Richardson S, Gilks W: A Bayesian approach to measurement error problems in epidemiology using conditional independence models. American Journal of Epidemiology 1993, 138: 430\u2013442.","journal-title":"American Journal of Epidemiology"},{"key":"2497_CR18","doi-asserted-by":"publisher","first-page":"1703","DOI":"10.1002\/sim.4780121806","volume":"12","author":"S Richardson","year":"1993","unstructured":"Richardson S, Gilks W: Conditional independence models for epidemiological studies with covariate measurement error. Statistics in Medicine 1993, 12: 1703\u20131722. 10.1002\/sim.4780121806","journal-title":"Statistics in Medicine"},{"key":"2497_CR19","first-page":"401","volume-title":"Markov Chain Monte Carlo in practice","author":"S Richardson","year":"1996","unstructured":"Richardson S: Markov Chain Monte Carlo in practice. Chapman & Hall, London chap. Measurement error; 1996:401\u2013418."},{"key":"2497_CR20","volume-title":"WinBUGS User Manual","author":"D Spiegelhalter","year":"2007","unstructured":"Spiegelhalter D, Thomas A, Best N, Lunn D: WinBUGS User Manual. Version 1.4.3, MRC Biostatistics Unit, Cambridge; 2007."},{"key":"2497_CR21","unstructured":"Affymetrix: Latin Square Data Set.[\n                    http:\/\/www.affymetrix.com\/support\/technical\/sample_data\/datasets.affx\n                    \n                  ]"},{"key":"2497_CR22","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1111\/j.1541-0420.2005.00394.x","volume":"62","author":"A Lewin","year":"2006","unstructured":"Lewin A, Richardson S, Marshall C, Glazier A, Aitman T: Bayesian Modelling of Differential Gene Expression. Biometrics 2006, 62: 1\u20139. 10.1111\/j.1541-0420.2005.00394.x","journal-title":"Biometrics"},{"key":"2497_CR23","doi-asserted-by":"publisher","first-page":"509","DOI":"10.1093\/bioinformatics\/17.6.509","volume":"17","author":"P Baldi","year":"2001","unstructured":"Baldi P, Long A: A Bayesian framework for the analysis of microarray expression data: regularized t-test and statistical inferences of gene changes. Bioinformatics 2001, 17: 509\u2013519. 10.1093\/bioinformatics\/17.6.509","journal-title":"Bioinformatics"},{"issue":"4","key":"2497_CR24","doi-asserted-by":"publisher","first-page":"1117","DOI":"10.1111\/j.1541-0420.2007.00807.x","volume":"63","author":"N Bochkina","year":"2007","unstructured":"Bochkina N, Richardson S: Tail Posterior Probability for Inference in Pairwise and Multiclass Gene Expression Data. Biometrics 2007, 63(4):1117\u201325.","journal-title":"Biometrics"},{"key":"2497_CR25","first-page":"733","volume":"6","author":"A Gelman","year":"1996","unstructured":"Gelman A, Meng X, Stern H: Posterior predictive assessment of model fitness via realized discrepancies. Statistica Sinica 1996, 6: 733\u2013807.","journal-title":"Statistica Sinica"},{"issue":"2","key":"2497_CR26","doi-asserted-by":"publisher","first-page":"409","DOI":"10.1214\/07-BA218","volume":"2","author":"C Marshall","year":"2007","unstructured":"Marshall C, Spiegelhalter D: Identifying outliers in Bayesian hierarchical models: a simulation-based approach. Bayesian Analysis 2007, 2(2):409\u2013444.","journal-title":"Bayesian Analysis"},{"key":"2497_CR27","doi-asserted-by":"crossref","first-page":"Article36","DOI":"10.2202\/1544-6115.1314","volume":"6","author":"A Lewin","year":"2007","unstructured":"Lewin A, Bochkina N, Richardson S: Fully Bayesian mixture model for differential gene expression: simulations and model checks. Stat Appl Genet Mol Biol 2007, 6: Article36.","journal-title":"Stat Appl Genet Mol Biol"},{"issue":"4","key":"2497_CR28","doi-asserted-by":"publisher","first-page":"583","DOI":"10.1111\/1467-9868.00353","volume":"64","author":"D Spiegelhalter","year":"2002","unstructured":"Spiegelhalter D, Best N, Carlin B, Linde A: Bayesian measures of model complexity and fit (with discussion). Journal of the Royal Statistical Society, Series B 2002, 64(4):583\u2013639. 10.1111\/1467-9868.00353","journal-title":"Journal of the Royal Statistical Society, Series B"},{"key":"2497_CR29","unstructured":"Diabetes Genome Anatomy Project website[\n                    http:\/\/www.diabetesgenome.org\/arraydata.cgi\n                    \n                  ]"},{"key":"2497_CR30","doi-asserted-by":"publisher","first-page":"W472","DOI":"10.1093\/nar\/gkl172","volume":"34","author":"F Al-Shahrour","year":"2006","unstructured":"Al-Shahrour F, Minguez P, T'arraga J, Montaner D, Alloza E, Vaquerizas J, Conde L, Blaschke C, Vera J, Dopazo J: BABELOMICS: a systems biology perspective in the functional annotation of genome-scale experiments. Nucleic Acids Research 2006, 34: W472-W476. 10.1093\/nar\/gkl172","journal-title":"Nucleic Acids Research"},{"issue":"5","key":"2497_CR31","doi-asserted-by":"publisher","first-page":"457","DOI":"10.1111\/j.1365-3083.2006.01791.x","volume":"64","author":"C Verwaerde","year":"2006","unstructured":"Verwaerde C, Delanoye A, Macia L, Tailleux A, Wolowczuk I: Influence of high-fat feeding on both naive and antigen-experienced T-cell immune response in DO10.11 mice. Scandinavian Journal of Immunology 2006, 64(5):457\u2013466. 10.1111\/j.1365-3083.2006.01791.x","journal-title":"Scandinavian Journal of Immunology"},{"key":"2497_CR32","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1155\/2007\/28436","volume":"ID28436","author":"M Masternak","year":"2007","unstructured":"Masternak M, Bartke A: PPARs in Calorie Restricted and Genetically Long-Lived Mice. PPAR Research 2007, ID28436: 1\u20137. 10.1155\/2007\/28436","journal-title":"PPAR Research"},{"issue":"468","key":"2497_CR33","doi-asserted-by":"publisher","first-page":"909","DOI":"10.1198\/016214504000000683","volume":"99","author":"Z Wu","year":"2004","unstructured":"Wu Z, Irizarry R, Gentleman R, Martinez-Murillo F, Spencer F: A Model-Based Background Adjustment for Oligonucleotide Expression Arrays. Journal of the American Statistical Society 2004, 99(468):909\u2013917.","journal-title":"Journal of the American Statistical Society"},{"key":"2497_CR34","doi-asserted-by":"publisher","first-page":"23","DOI":"10.1186\/1471-2105-7-23","volume":"7","author":"L Qin","year":"2006","unstructured":"Qin L, Beyer R, Hudson F, Linford N, Morris D, Kerr K: Evaluation of methods for oligonucleotide array data via quantitative real-time PCR. BMC Bioinformatics 2006, 7: 23. 10.1186\/1471-2105-7-23","journal-title":"BMC Bioinformatics"},{"key":"2497_CR35","doi-asserted-by":"publisher","first-page":"S96","DOI":"10.1093\/bioinformatics\/18.suppl_1.S96","volume":"18 Suppl 1","author":"W Huber","year":"2002","unstructured":"Huber W, von Heydebreck A, Sultmann H, Poustka A, Vingron M: Variance stabilization applied to microarray data calibration and to quantification of differential expression. Bioinformatics 2002, 18 Suppl 1: S96-S104.","journal-title":"Bioinformatics"},{"key":"2497_CR36","unstructured":"Biological Atlas of Insulin Resistance[\n                    http:\/\/www.bair.org.uk\n                    \n                  ]"},{"key":"2497_CR37","volume-title":"COBRA preprint Series","author":"M McGee","year":"2006","unstructured":"McGee M, Chen Z: New Spiked-In Probe Sets for the Affymetrix HGU \u2013 133A Latin Square Experiment. COBRA preprint Series 2006."},{"key":"2497_CR38","volume-title":"Statistical algorithms description document, Technical Report","author":"Affymetrix","year":"2002","unstructured":"Affymetrix: Statistical algorithms description document, Technical Report. 2002."},{"issue":"2","key":"2497_CR39","doi-asserted-by":"publisher","first-page":"249","DOI":"10.1093\/biostatistics\/4.2.249","volume":"4","author":"R Irizarry","year":"2003","unstructured":"Irizarry R, Hobbs B, Collin F, Beazer-Barclay Y, Antonellis K, Scherf U, Speed T: Exploration, Normalization, and Summaries of High Density Oligonucleotide Array Probe Level Data. Biostatistics 2003, 4(2):249\u2013264. 10.1093\/biostatistics\/4.2.249","journal-title":"Biostatistics"},{"issue":"8","key":"2497_CR40","first-page":"RESEARCH0032","volume":"2","author":"C Li","year":"2001","unstructured":"Li C, Hung Wong W: Model-based analysis of oligonucleotide arrays: model validation, design issues and standard error application. Genome Biol 2001, 2(8):RESEARCH0032.","journal-title":"Genome Biol"},{"key":"2497_CR41","doi-asserted-by":"publisher","first-page":"R:80","DOI":"10.1186\/gb-2004-5-10-r80","volume":"5","author":"R Gentleman","year":"2004","unstructured":"Gentleman R, Carey V, Bates D, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry Jea: Bioconductor: open software development for computational biology and bioinformatics. Genome Biology 2004, 5: R:80. 10.1186\/gb-2004-5-10-r80","journal-title":"Genome Biology"},{"issue":"5","key":"2497_CR42","doi-asserted-by":"publisher","first-page":"e81","DOI":"10.1371\/journal.pgen.0020081","volume":"2","author":"R Koza","year":"2006","unstructured":"Koza R, Nikonova L, Hogan J, Rim J, Mendoza T, Faulk C, Skaf J, Kozak L: Changes in gene expression foreshadow diet-induced obesity in genetically identical mice. PLoS Genetics 2006, 2(5):e81. 10.1371\/journal.pgen.0020081","journal-title":"PLoS Genetics"},{"issue":"8","key":"2497_CR43","doi-asserted-by":"publisher","first-page":"995","DOI":"10.1101\/gr.5217506","volume":"16","author":"X Yang","year":"2006","unstructured":"Yang X, Schadt E, Wang S, Wang H, Arnold A, Ingram-Drake L, Drake T, Lusis A: Tissue-specific expression and regulation of sexually dimorphic genes in mice. Genome Research 2006, 16(8):995\u20131004. 10.1101\/gr.5217506","journal-title":"Genome Research"},{"key":"2497_CR44","doi-asserted-by":"publisher","first-page":"131","DOI":"10.1152\/physiolgenomics.00146.2003","volume":"19","author":"A Recinos","year":"2004","unstructured":"Recinos A, Carr B, Bartos D, Boldogh I, Carmical J, Belalcazar L, Brasier A: Liver gene expression associated with diet and lesion development in atherosclerosis-prone mice: induction of components of alternative complement pathway. Physiological Genomics 2004, 19: 131\u2013142. 10.1152\/physiolgenomics.00146.2003","journal-title":"Physiological Genomics"},{"issue":"18","key":"2497_CR45","doi-asserted-by":"publisher","first-page":"6497","DOI":"10.1128\/MCB.00679-07","volume":"27","author":"L Wang","year":"2007","unstructured":"Wang L, Balas B, Christ-Roberts C, Yeo Kim R, Ramos F, Kikani C, Li C, Deng C, Reyna S, Musi N, Dong L, DeFronzo R, Liu F: Peripheral Disruption of Grb10 Gene Enhances Insulin Signaling and Sensitivity in vivo. Mol Cell Biol 2007, 27(18):6497\u20136505. 10.1128\/MCB.00679-07","journal-title":"Mol Cell Biol"},{"issue":"7","key":"2497_CR46","doi-asserted-by":"publisher","first-page":"1307","DOI":"10.1016\/j.cell.2005.09.041","volume":"123","author":"K Ohtsubo","year":"2005","unstructured":"Ohtsubo K, Takamatsu S, Minowa M, Yoshida A, Takeuchi M, Marth J: Dietary and Genetic Control of Glucose Transporter 2 Glycosylation Promotes Insulin Secretion in Suppressing Diabetes. Cell 2005, 123(7):1307\u20131321. 10.1016\/j.cell.2005.09.041","journal-title":"Cell"}],"container-title":["BMC Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-9-512.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/article\/10.1186\/1471-2105-9-512\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-9-512.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2019,1,22]],"date-time":"2019-01-22T05:10:46Z","timestamp":1548133846000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcbioinformatics.biomedcentral.com\/articles\/10.1186\/1471-2105-9-512"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2008,12]]},"references-count":46,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2008,12]]}},"alternative-id":["2497"],"URL":"https:\/\/doi.org\/10.1186\/1471-2105-9-512","relation":{},"ISSN":["1471-2105"],"issn-type":[{"value":"1471-2105","type":"electronic"}],"subject":[],"published":{"date-parts":[[2008,12]]},"article-number":"512"}}