Journal article
Genome-wide analysis of long noncoding RNA stability
MB Clark, RL Johnston, M Inostroza-Ponta, AH Fox, E Fortini, P Moscato, ME Dinger, JS Mattick
Genome Research | COLD SPRING HARBOR LAB PRESS, PUBLICATIONS DEPT | Published : 2012
Abstract
Transcriptomic analyses have identified tens of thousands of intergenic, intronic, and cis-antisense long noncoding RNAs (lncRNAs) that are expressed from mammalian genomes. Despite progress in functional characterization, little is known about the post-transcriptional regulation of lncRNAs and their half-lives. Although many are easily detectable by a variety of techniques, it has been assumed that lncRNAs are generally unstable, but this has not been examined genome-wide. Utilizing a custom noncoding RNA array, we determined the half-lives of ∼800 lncRNAs and ∼12,000 mRNAs in the mouse Neuro-2a cell line. We find only a minority of lncRNAs are unstable. LncRNA half-lives vary over a wide r..
View full abstractGrants
Awarded by National Health and Medical Research Council
Funding Acknowledgements
We thank Dr. Matt Ritchie from the Walter and Eliza Hall Institute of Medical Research for helpful advice on microarray normalization and analysis, Prof. Caroline Friedel from the Ludwig-Maximilians-Universitat Munchen for sharing half-life data, Dr. Nedda Cecchinato from the Queensland University of Technology for statistical advice, Dr. Sven Hennig from the Western Australian Institute for Medical Research, and the rest of the Mattick Laboratory for useful discussions. This work was supported by a National Health and Medical Research Council (NHMRC) Australia Fellowship (631668; J.S.M.), an NHMRC Career Development Award (631542; M.E.D.), and a Queensland Government Department of Employment, Economic Development and Innovation Smart Futures Fellowship (M.E.D.).