Evaluation of methods for differential expression analysis on multi-group RNA-seq count data
نویسندگان
چکیده
منابع مشابه
Differential Expression Analysis for RNA-Seq Data
RNA-Seq is increasingly being used for gene expression profiling. In this approach, next-generation sequencing (NGS) platforms are used for sequencing. Due to highly parallel nature, millions of reads are generated in a short time and at low cost. Therefore analysis of the data is a major challenge and development of statistical and computational methods is essential for drawing meaningful conc...
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High-throughput sequencing of RNA transcripts (RNA-seq) has become the method of choice for detection of differential expression (DE). Concurrent with the growing popularity of this technology there has been a significant research effort devoted towards understanding the statistical properties of this data and developing analysis methods. We report on a comprehensive evaluation of the commonly ...
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Comprehensive evaluation of differential gene expression analysis methods for RNA-seq data Genome Biology 2013, 14:R95 doi:10.1186/gb-2013-14-9-r95 Franck Rapaport ([email protected]) Raya Khanin ([email protected]) Yupu Liang ([email protected]) Mono Pirun ([email protected]) Azra Krek ([email protected]) Paul Zumbo ([email protected]) Christopher E Mason ([email protected]...
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Background. A number of algorithms exist for analysing RNA-sequencing data to infer profiles of differential gene expression. Problems inherent in building algorithms around statistical models of over dispersed count data are formidable and frequently lead to non-uniform p-value distributions for null-hypothesis data and to inaccurate estimates of false discovery rates (FDRs). This can lead to ...
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3 RNA–Seq data preprocessing 2 3.1 Creation of a sample metadata table . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3 3.2 Quality control commands . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4 3.3 Alignment of reads . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4 3.4 Sorting and in...
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ژورنال
عنوان ژورنال: BMC Bioinformatics
سال: 2015
ISSN: 1471-2105
DOI: 10.1186/s12859-015-0794-7