{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"omics_type":["Unknown"],"volume":["9"],"submitter":["Astrand M"],"pubmed_abstract":["<h4>Background</h4>When analyzing microarray data a primary objective is often to find differentially expressed genes. With empirical Bayes and penalized t-tests the sample variances are adjusted towards a global estimate, producing more stable results compared to ordinary t-tests. However, for Affymetrix type data a clear dependency between variability and intensity-level generally exists, even for logged intensities, most clearly for data at the probe level but also for probe-set summarizes such as the MAS5 expression index. As a consequence, adjustment towards a global estimate results in an intensity-level dependent false positive rate.<h4>Results</h4>We propose two new methods for finding differentially expressed genes, Probe level Locally moderated Weighted median-t (PLW) and Locally"],"journal":["BMC bioinformatics"],"pagination":["156"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC2358895"],"repository":["biostudies-literature"],"pubmed_title":["Empirical Bayes models for multiple probe type microarrays at the probe level."],"pmcid":["PMC2358895"],"pubmed_authors":["Rudemo M","Astrand M","Mostad P"],"additional_accession":[]},"is_claimable":false,"name":"Empirical Bayes models for multiple probe type microarrays at the probe level.","description":"<h4>Background</h4>When analyzing microarray data a primary objective is often to find differentially expressed genes. With empirical Bayes and penalized t-tests the sample variances are adjusted towards a global estimate, producing more stable results compared to ordinary t-tests. However, for Affymetrix type data a clear dependency between variability and intensity-level generally exists, even for logged intensities, most clearly for data at the probe level but also for probe-set summarizes such as the MAS5 expression index. As a consequence, adjustment towards a global estimate results in an intensity-level dependent false positive rate.<h4>Results</h4>We propose two new methods for finding differentially expressed genes, Probe level Locally moderated Weighted median-t (PLW) and Locally","dates":{"release":"2008-01-01T00:00:00Z","publication":"2008 Mar","modification":"2025-04-04T10:42:14.165Z","creation":"2019-03-27T02:44:54Z"},"accession":"S-EPMC2358895","cross_references":{"pubmed":["18366694"],"doi":["10.1186/1471-2105-9-156"]}}