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CREDO: Highly confident disease-relevant A-to-I RNA-editing discovery in breast cancer.

Abstract：

:Adenosine-to-Inosine (A-to-I) RNA editing is the most prevalent post-transcriptional modification of RNA molecules. Researchers have attempted to find reliable RNA editing using next generation sequencing (NGS) data. However, most of these attempts suffered from a high rate of false positives, and they did not consider the clinical relevance of the identified RNA editing, for example, in disease progression. We devised an effective RNA-editing discovery pipeline called CREDO, which includes novel statistical filtering modules based on integration of DNA- and RNA-seq data from matched tumor-normal tissues. CREDO was compared with three other RNA-editing discovery pipelines and found to give significantly fewer false positives. Application of CREDO to breast cancer data from the Cancer Genome Atlas (TCGA) project discovered highly confident RNA editing with clinical relevance to cancer progression in terms of patient survival. RNA-editing detection using DNA- and RNA-seq data from matched tumor-normal tissues should be more routinely performed as multiple omics data are becoming commonly available from each patient sample. We believe CREDO is an effective and reliable tool for this problem.

journal_name

Sci Rep

journal_title

Scientific reports

authors

Hwang W,Calza S,Silvestri M,Pawitan Y,Lee Y

doi

10.1038/s41598-019-41294-y

subject

Has Abstract

pub_date

2019-03-25 00:00:00

pages

5064

issue

1

issn

2045-2322

pii

10.1038/s41598-019-41294-y

journal_volume

9

pub_type

杂志文章

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