Landscape of circRNAs Across 11 Organs and 4 Ages in Fischer 344 Rats.

Chemical Research in Toxicology
Binsheng GongWeida Tong

Abstract

Circular RNAs (circRNAs) are a class of endogenous noncoding RNAs with a covalently closed loop. Aside from their recognized regulatory functions (e.g., sponging microRNAs to reduce their activity, and altering parental gene transcription by competing with the canonical splicing of pre-mRNA), expression of circRNAs is abundant, diverse, and conservative across species, rendering them as potential biomarker candidates. Consequently, the landscape of circRNAs has been studied for several species. Although the rat is one of the most important animal models for drug safety and toxicological research, few attempts have been made to understand the landscape of rat circRNAs. One noticeable challenge in analyzing circRNAs with next-generation sequencing (NGS) data is to find ways to use rapidly advancing bioinformatics approaches to improve accuracy while also reducing the number of resulting false positives that occur in circRNA identification with these new methods. Here, we applied two of the most advanced circRNA bioinformatics pipelines to provide a landscape of circRNAs in rats by analyzing an RNA-seq data set for 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testis or uterus) from Fisch...Continue Reading

References

Nov 1, 1976·Proceedings of the National Academy of Sciences of the United States of America·H L SangerA K Kleinschmidt
Dec 20, 2012·RNA·William R JeckNorman E Sharpless
Mar 1, 2013·Nature·Thomas B HansenJørgen Kjems
Mar 7, 2013·The EMBO Journal·Matthias W Hentze, Thomas Preiss
Sep 17, 2013·Molecular Cell·Yang ZhangLing-Ling Chen
Dec 18, 2013·Frontiers in Genetics·Suman GhosalJayprokas Chakrabarti
Jan 16, 2014·Frontiers in Genetics·Walter J Lukiw
Feb 11, 2014·Nature Communications·Ying YuCharles Wang
May 9, 2014·Nature Biotechnology·William R Jeck, Norman E Sharpless
Sep 23, 2014·RNA·Petar GlažarNikolaus Rajewsky
Sep 23, 2014·Molecular Cell·Reut Ashwal-FlussSebastian Kadener
Nov 8, 2014·Clinical Chemistry·Jae Hoon BahnXinshu Xiao
Nov 19, 2014·RNA·Erika Lasda, Roy Parker
Dec 17, 2014·PLoS Pathogens·Zhixiang ZhangQingfa Wu
Feb 11, 2015·Nature Structural & Molecular Biology·Zhaoyong LiGe Shan
Oct 16, 2015·International Journal of Cardiology·Huibo WangChaojun Yang
Dec 15, 2015·Nucleic Acids Research·Thomas B HansenJørgen Kjems
Feb 14, 2016·Briefings in Functional Genomics·Zhuoyuan XinFan Li
Mar 24, 2017·Briefings in Bioinformatics·Yuan GaoFangqing Zhao
Mar 28, 2017·Molecular Cell·Nagarjuna Reddy PamudurtiSebastian Kadener
Mar 21, 2019·Cell Reports·Peifeng JiFangqing Zhao

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Citations

Feb 16, 2021·Chemical Research in Toxicology·Nicole C KleinstreuerWeida Tong

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