Differential expression in RNA-seq: A matter of depth
Centro de Investigacion Principe Felipe · Universitat Politècnica de València
Abstract
Next-generation sequencing (NGS) technologies are revolutionizing genome research, and in particular, their application to transcriptomics (RNA-seq) is increasingly being used for gene expression profiling as a replacement for microarrays. However, the properties of RNA-seq data have not been yet fully established, and additional research is needed for understanding how these data respond to differential expression analysis. In this work, we set out to gain insights into the characteristics of RNA-seq data analysis by studying an important parameter of this technology: the sequencing depth. We have analyzed how sequencing depth affects the detection of transcripts and their identification as differentially…
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- References
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Authors
5- STSonia TarazonaCorresponding
Centro de Investigacion Principe Felipe, Universitat Politècnica de València
- FGFernando García-Alcalde
Centro de Investigacion Principe Felipe
- JDJoaquı́n Dopazo
Centro de Investigacion Principe Felipe
- AFAlberto Ferrer
Universitat Politècnica de València
- ACAna Conesa
Centro de Investigacion Principe Felipe
Topics & keywords
- Biology
- RNA-Seq
- Computational biology
- Deep sequencing
- DNA microarray
- Transcriptome
- Gene expression profiling
- False positive paradox