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Cited by 240

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Genome-wide assessment of differential translations with ribosome profiling data

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Xiao, Zhengtao, Zou, Qin, Liu, Yu, Yang, Xuerui·2016·Nature Communications
DOI 10.1038/ncomms11194
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Abstract

The closely regulated process of mRNA translation is crucial for precise control of protein abundance and quality. Ribosome profiling, a combination of ribosome foot-printing and RNA deep sequencing, has been used in a large variety of studies to quantify genome-wide mRNA translation. Here, we developed Xtail, an analysis pipeline tailored for ribosome profiling data that comprehensively and accurately identifies differentially translated genes in pairwise comparisons. Applied on simulated and real datasets, Xtail exhibits high sensitivity with minimal false-positive rates, outperforming existing methods in the accuracy of quantifying differential translations. With published ribosome profiling datasets, Xtail does not only reveal differentially translated genes that make biological sense, but also uncovers new events of differential translation in human cancer cells on mTOR signalling perturbation and in human primary macrophages on interferon gamma (IFN-γ) treatment. This demonstrates the value of Xtail in providing novel insights into the molecular mechanisms that involve translational dysregulations.

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Metadata

Authors
Xiao, Z., Zou, Q., Liu, Y., & Yang, X.
Venue
Nature Communications
Publisher
Springer Science and Business Media LLC
Published
2016-04-04
Volume
7
Issue
1
Pages
11194-11194
ISSN
2041-1723 (ISSN-L)
DOI
10.1038/ncomms11194
OpenAlex
W2319914265
Cited by
240
References
15
FWCI
10.98
Type
journal article
Language
en
Open access
gold
Licence

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Xiao, Z., Zou, Q., Liu, Y., & Yang, X. (2016). Genome-wide assessment of differential translations with ribosome profiling data. Nature Communications. https://doi.org/10.1038/ncomms11194

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