{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2024,6,3]],"date-time":"2024-06-03T01:32:14Z","timestamp":1717378334489},"reference-count":26,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2006,8,25]],"date-time":"2006-08-25T00:00:00Z","timestamp":1156464000000},"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":[[2006,12]]},"DOI":"10.1186\/1471-2105-7-391","type":"journal-article","created":{"date-parts":[[2006,9,27]],"date-time":"2006-09-27T18:26:23Z","timestamp":1159381583000},"source":"Crossref","is-referenced-by-count":9,"title":["Probe-level linear model fitting and mixture modeling results in high accuracy detection of differential gene expression"],"prefix":"10.1186","volume":"7","author":[{"given":"S\u00e9bastien","family":"Lemieux","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2006,8,25]]},"reference":[{"issue":"1","key":"1130_CR1","first-page":"111","volume":"12","author":"S Dudoit","year":"2002","unstructured":"Dudoit S, Yang YH, Callow MJ, Speed TP: Statistical methods for identifying differentially expressed genes in replicated cDNA microarray experiments. Stat Sin 2002, 12(1):111\u2013139.","journal-title":"Stat Sin"},{"issue":"1","key":"1130_CR2","doi-asserted-by":"crossref","first-page":"289","DOI":"10.1111\/j.2517-6161.1995.tb02031.x","volume":"57","author":"Y Benjamini","year":"1995","unstructured":"Benjamini Y, Hochberg Y: Controlling the False Discovery Rate - a Practical and Powerful Approach to Multiple Testing. Journal of the Royal Statistical Society Series B-Methodological 1995, 57(1):289\u2013300.","journal-title":"Journal of the Royal Statistical Society Series B-Methodological"},{"key":"1130_CR3","doi-asserted-by":"crossref","first-page":"16","DOI":"10.2144\/mar03simon","volume":"Suppl","author":"RM Simon","year":"2003","unstructured":"Simon RM, Dobbin K: Experimental design of DNA microarray experiments. Biotechniques 2003, Suppl: 16\u201321.","journal-title":"Biotechniques"},{"key":"1130_CR4","unstructured":"Affymetrix: Statistical Algorithms Description Document.[ http:\/\/www.affymetrix.com\/support\/technical\/byproduct.affx?product=mas ]"},{"issue":"2","key":"1130_CR5","doi-asserted-by":"publisher","first-page":"249","DOI":"10.1093\/biostatistics\/4.2.249","volume":"4","author":"RA Irizarry","year":"2003","unstructured":"Irizarry RA, Hobbs B, Collin F, Beazer-Barclay YD, Antonellis KJ, Scherf U, Speed TP: 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":"1130_CR6","doi-asserted-by":"publisher","first-page":"943","DOI":"10.1093\/bioinformatics\/btl033","volume":"22","author":"S Hochreiter","year":"2006","unstructured":"Hochreiter S, Clevert DA, Obermayer K: A new summarization method for Affymetrix probe level data. Bioinformatics 2006, 22(8):943\u2013949. 10.1093\/bioinformatics\/btl033","journal-title":"Bioinformatics"},{"issue":"2","key":"1130_CR7","doi-asserted-by":"publisher","first-page":"R16","DOI":"10.1186\/gb-2005-6-2-r16","volume":"6","author":"SE Choe","year":"2005","unstructured":"Choe SE, Boutros M, Michelson AM, Church GM, Halfon MS: Preferred analysis methods for Affymetrix GeneChips revealed by a wholly defined control dataset. Genome Biol 2005, 6(2):R16. 10.1186\/gb-2005-6-2-r16","journal-title":"Genome Biol"},{"issue":"6","key":"1130_CR8","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 AD: A Bayesian framework for the analysis of microarray expression data: regularized t -test and statistical inferences of gene changes. Bioinformatics 2001, 17(6):509\u2013519. 10.1093\/bioinformatics\/17.6.509","journal-title":"Bioinformatics"},{"issue":"9","key":"1130_CR9","doi-asserted-by":"publisher","first-page":"5116","DOI":"10.1073\/pnas.091062498","volume":"98","author":"VG Tusher","year":"2001","unstructured":"Tusher VG, Tibshirani R, Chu G: Significance analysis of microarrays applied to the ionizing radiation response. Proc Natl Acad Sci U S A 2001, 98(9):5116\u20135121. 10.1073\/pnas.091062498","journal-title":"Proc Natl Acad Sci U S A"},{"issue":"456","key":"1130_CR10","doi-asserted-by":"publisher","first-page":"1151","DOI":"10.1198\/016214501753382129","volume":"96","author":"B Efron","year":"2001","unstructured":"Efron B, Tibshirani R, Storey JD, Tusher V: Empirical Bayes analysis of a microarray experiment. J Am Stat Assoc 2001, 96(456):1151\u20131160. 10.1198\/016214501753382129","journal-title":"J Am Stat Assoc"},{"key":"1130_CR11","doi-asserted-by":"publisher","first-page":"ii108","DOI":"10.1093\/bioinformatics\/bti1119","volume":"21 Suppl 2","author":"S Mukherjee","year":"2005","unstructured":"Mukherjee S, Roberts SJ, van der Laan MJ: Data-adaptive test statistics for microarray data. Bioinformatics 2005, 21 Suppl 2: ii108-ii114. 10.1093\/bioinformatics\/bti1119","journal-title":"Bioinformatics"},{"key":"1130_CR12","doi-asserted-by":"publisher","first-page":"42","DOI":"10.1186\/1471-2105-5-42","volume":"5","author":"L Barrera","year":"2004","unstructured":"Barrera L, Benner C, Tao YC, Winzeler E, Zhou Y: Leveraging two-way probe-level block design for identifying differential gene expression with high-density oligonucleotide arrays. BMC Bioinformatics 2004, 5: 42. 10.1186\/1471-2105-5-42","journal-title":"BMC Bioinformatics"},{"issue":"3","key":"1130_CR13","doi-asserted-by":"publisher","first-page":"193","DOI":"10.1017\/S0016672305007822","volume":"86","author":"Z Jia","year":"2005","unstructured":"Jia Z, Xu S: Clustering expressed genes on the basis of their association with a quantitative phenotype. Genet Res 2005, 86(3):193\u2013207. 10.1017\/S0016672305007822","journal-title":"Genet Res"},{"issue":"2","key":"1130_CR14","doi-asserted-by":"publisher","first-page":"185","DOI":"10.1093\/bioinformatics\/19.2.185","volume":"19","author":"BM Bolstad","year":"2003","unstructured":"Bolstad BM, Irizarry RA, Astrand M, Speed TP: 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"},{"key":"1130_CR15","volume-title":"Applied linear statistical models","author":"J Neter","year":"1996","unstructured":"Neter J: Applied linear statistical models. 4th edition. Boston, WCB McGraw-Hill; 1996.","edition":"4th"},{"issue":"403","key":"1130_CR16","doi-asserted-by":"publisher","first-page":"596","DOI":"10.1080\/01621459.1988.10478639","volume":"83","author":"WS Cleveland","year":"1998","unstructured":"Cleveland WS, Devlin SJ: Locally Weighted Regression: An Approach to Regression Analysis by Local Fitting. Journal of the American Statistical Association 1998, 83(403):596\u2013609. 10.2307\/2289282","journal-title":"Journal of the American Statistical Association"},{"issue":"3","key":"1130_CR17","doi-asserted-by":"publisher","first-page":"346","DOI":"10.1152\/physiolgenomics.00260.2004","volume":"22","author":"RA Jolly","year":"2005","unstructured":"Jolly RA, Goldstein KM, Wei T, Gao H, Chen P, Huang S, Colet JM, Ryan TP, Thomas CE, Estrem ST: Pooling samples within microarray studies: a comparative analysis of rat liver transcription response to prototypical toxicants. Physiol Genomics 2005, 22(3):346\u2013355. 10.1152\/physiolgenomics.00260.2004","journal-title":"Physiol Genomics"},{"issue":"12","key":"1130_CR18","doi-asserted-by":"publisher","first-page":"4252","DOI":"10.1073\/pnas.0500607102","volume":"102","author":"C Kendziorski","year":"2005","unstructured":"Kendziorski C, Irizarry RA, Chen KS, Haag JD, Gould MN: On the utility of pooling biological samples in microarray experiments. Proc Natl Acad Sci U S A 2005, 102(12):4252\u20134257. 10.1073\/pnas.0500607102","journal-title":"Proc Natl Acad Sci U S A"},{"issue":"18","key":"1130_CR19","doi-asserted-by":"publisher","first-page":"3318","DOI":"10.1093\/bioinformatics\/bth391","volume":"20","author":"JH Shih","year":"2004","unstructured":"Shih JH, Michalowska AM, Dobbin K, Ye Y, Qiu TH, Green JE: Effects of pooling mRNA in microarray class comparisons. Bioinformatics 2004, 20(18):3318\u20133325. 10.1093\/bioinformatics\/bth391","journal-title":"Bioinformatics"},{"issue":"24","key":"1130_CR20","doi-asserted-by":"publisher","first-page":"4378","DOI":"10.1093\/bioinformatics\/bti717","volume":"21","author":"SD Zhang","year":"2005","unstructured":"Zhang SD, Gant TW: Effect of pooling samples on the efficiency of comparative studies using microarrays. Bioinformatics 2005, 21(24):4378\u20134383. 10.1093\/bioinformatics\/bti717","journal-title":"Bioinformatics"},{"key":"1130_CR21","doi-asserted-by":"publisher","first-page":"xxii, 419","DOI":"10.1002\/0471721182","volume-title":"Finite mixture models","author":"GJ McLachlan","year":"2000","unstructured":"McLachlan GJ, Peel D: Finite mixture models. New York ; Toronto, Wiley; 2000:xxii, 419."},{"issue":"6","key":"1130_CR22","doi-asserted-by":"publisher","first-page":"819","DOI":"10.1089\/10665270050514954","volume":"7","author":"MK Kerr","year":"2000","unstructured":"Kerr MK, Martin M, Churchill GA: Analysis of variance for gene expression microarray data. J Comput Biol 2000, 7(6):819\u2013837. 10.1089\/10665270050514954","journal-title":"J Comput Biol"},{"issue":"1","key":"1130_CR23","doi-asserted-by":"publisher","first-page":"Article 3","DOI":"10.2202\/1544-6115.1027","volume":"3","author":"GK Smyth","year":"2004","unstructured":"Smyth GK: Linear Models and Empirical Bayes Methods for Assessing Differential Expression in Microarray Experiments. Statistical Applications in Genetics and Molecular Biology 2004, 3(1):Article 3. 10.2202\/1544-6115.1027","journal-title":"Statistical Applications in Genetics and Molecular Biology"},{"key":"1130_CR24","doi-asserted-by":"crossref","first-page":"xvii, 482","DOI":"10.1093\/oso\/9780198538493.001.0001","volume-title":"Neural networks for pattern recognition","author":"CM Bishop","year":"1995","unstructured":"Bishop CM: Neural networks for pattern recognition. Oxford, Oxford University Press; 1995:xvii, 482."},{"issue":"1","key":"1130_CR25","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1111\/j.2517-6161.1977.tb01600.x","volume":"39","author":"AP Dempster","year":"1977","unstructured":"Dempster AP, Laird NM, Rubin DB: Maximum Likelihood from Incomplete Data via the EM Algorithm. Journal of the Royal Statistical Society Series B (Methodological) 1977, 39(1):1\u201338.","journal-title":"Journal of the Royal Statistical Society Series B (Methodological)"},{"issue":"2","key":"1130_CR26","doi-asserted-by":"publisher","first-page":"297","DOI":"10.1007\/s003579900058","volume":"16","author":"C Fraley","year":"1999","unstructured":"Fraley C, Raftery AE: MCLUST: Software for model-based cluster analysis. J Classif 1999, 16(2):297\u2013306. 10.1007\/s003579900058","journal-title":"J Classif"}],"container-title":["BMC Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-7-391.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/article\/10.1186\/1471-2105-7-391\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-7-391.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,2,6]],"date-time":"2024-02-06T18:22:54Z","timestamp":1707243774000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcbioinformatics.biomedcentral.com\/articles\/10.1186\/1471-2105-7-391"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2006,8,25]]},"references-count":26,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2006,12]]}},"alternative-id":["1130"],"URL":"https:\/\/doi.org\/10.1186\/1471-2105-7-391","relation":{},"ISSN":["1471-2105"],"issn-type":[{"value":"1471-2105","type":"electronic"}],"subject":[],"published":{"date-parts":[[2006,8,25]]},"article-number":"391"}}