Pomelo II: finding differentially expressed genes
نویسندگان
چکیده
منابع مشابه
Pomelo II: finding differentially expressed genes
Pomelo II (http://pomelo2.bioinfo.cnio.es) is an open-source, web-based, freely available tool for the analysis of gene (and protein) expression and tissue array data. Pomelo II implements: permutation-based tests for class comparisons (t-test, ANOVA) and regression; survival analysis using Cox model; contingency table analysis with Fisher's exact test; linear models (of which t-test and ANOVA ...
متن کاملFinding Significantly Differentially Expressed Genes
Scientists are interested in how gene expression levels may vary under different treatments. They want to know which genes are expressed differently under treatment conditions and control conditions. Gene expression microarray data are modeled to find significant changes in gene expression levels between a control and treatment tissue co-hybridized on one slide. The model used is the Bayesian h...
متن کاملFinding differentially expressed genes for pattern generation
MOTIVATION It is important to consider finding differentially expressed genes in a dataset of microarray experiments for pattern generation. RESULTS We developed two methods which are mainly based on the q-values approach; the first is a direct extension of the q-values approach, while the second uses two approaches: q-values and maximum-likelihood. We present two algorithms for the second me...
متن کاملHunting for differentially expressed genes.
Differentially expressed genes are usually identified by comparing steady-state mRNA concentrations. Several methods have been used for this purpose, including differential hybridization, cDNA subtraction, differential display and, more recently, DNA chips. Subtractive hybridization has significantly improved after the polymerase chain reaction was incorporated into the original method and many...
متن کاملMultivariate methods for identifying differentially expressed genes
Motivation: Univariate testing procedures remain the most common way to identify differentially expressed genes (DEGs). Univariate techniques suffer from the multiple comparison problem and reduced power, because they fail to account for gene interaction. Motivated by these issues, we adopt a multivariate procedure. Namely, we utilize the sup-norm test, which was specifically developed for high...
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ژورنال
عنوان ژورنال: Nucleic Acids Research
سال: 2009
ISSN: 0305-1048,1362-4962
DOI: 10.1093/nar/gkp366