Measurement of genome-wide RNA synthesis and decay rates with Dynamic 
Transcriptome Analysis (DTA)

Schwalb, B.; Schulz, D.; Sun, M.; Zacher, B.; Dümcke, S.; Martin, D. E.; Cramer, P.; Tresch, A.

doi:10.1093/bioinformatics/bts052

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Measurement of genome-wide RNA synthesis and decay rates with Dynamic Transcriptome Analysis (DTA)

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Cramer, P.
Department of Molecular Biology, MPI for Biophysical Chemistry, Max Planck Society;

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http://bioinformatics.oxfordjournals.org/content/28/6/884.full.pdf
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Citation

Schwalb, B., Schulz, D., Sun, M., Zacher, B., Dümcke, S., Martin, D. E., et al. (2012). Measurement of genome-wide RNA synthesis and decay rates with Dynamic Transcriptome Analysis (DTA). Bioinformatics, 28(6), 884-885. doi:10.1093/bioinformatics/bts052.

Cite as: https://hdl.handle.net/11858/00-001M-0000-0015-7C76-B

Abstract

Standard transcriptomics measures total cellular RNA levels. Our understanding of gene regulation would be greatly improved if we could measure RNA synthesis and decay rates on a genome-wide level. To that end, the Dynamic Transcriptome Analysis (DTA) method has been developed. DTA combines metabolic RNA labeling with standard transcriptomics to measure RNA synthesis and decay rates in a precise and non-perturbing manner. Here, we present the open source R/Bioconductor software package DTA. It implements all required bioinformatics steps that allow the accurate absolute quantification and comparison of RNA turnover.