RT Journal Article
SR Electronic
T1 A Mouse Tissue Atlas of Small Non-Coding RNA
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 430561
DO 10.1101/430561
A1 Alina Isakova
A1 Stephen R. Quake
YR 2018
UL http://biorxiv.org/content/early/2018/09/29/430561.abstract
AB Small non-coding RNAs (sRNAs) play a vital role in a broad range of biological processes both in health and disease. A comprehensive quantitative reference of sRNA expression would significantly advance our understanding of sRNA roles in shaping tissue functions. Here, we systematically profiled the expression of four sRNA classes across eleven mouse tissues by RNA-seq. Using fourteen biological replicates spanning both genders, we identified 3,962 various sRNAs; 473 of these sRNAs are novel and identified for the first time by this work. We found that 40% of these transcripts were distributed across the body in a tissue-specific manner, and this tissue-specificity extends through multiple sRNA classes; furthermore, some sRNAs are also sexually dimorphic. By combining these findings with machine learning, we were able to accurately classify tissue types from sRNA data generated by other studies. These results yield the most comprehensive catalog of specific and ubiquitous small RNAs in individual tissues to date, and we expect that this catalog will be a resource for the further identification of sRNAs involved in tissue-function in health and dysfunction in disease.