The RNA Atlas, a single nucleotide resolution map of the human transcriptome

Lucía Lorenzi; Hua‐Sheng Chiu; Francisco Avila Cobos; Stephen Gross; Pieter‐Jan Volders; Robrecht Cannoodt; Justine Nuytens; Katrien Vanderheyden; Jasper Anckaert; Steve Lefever; Tine Goovaerts; Thomas B. Hansen; Scott Kuersten; Nele Nijs; Tom Taghon; Karim Y. Vermaelen; Ken R. Bracke; Yvan Saeys; Tim De Meyer; Nandan Deshpande; Govardhan Anande; Ting-Wen Chen; Marc Ronald Wilkins; Ashwin Unnikrishnan; Katleen De Preter; Jørgen Kjems; Jan Köster; Gary P. Schroth; Jo Vandesompele; Pavel Sumazin

doi:10.1101/807529

GeneticsbioRxivOct 17, 2019

Preprint

The RNA Atlas, a single nucleotide resolution map of the human transcriptome

Lucía Lorenzi iD, Hua‐Sheng Chiu iD, Francisco Avila Cobos iD, Stephen Gross iD, Pieter‐Jan Volders iD, Robrecht Cannoodt iD, Justine Nuytens iD, Katrien Vanderheyden iD, Jasper Anckaert iD, Steve Lefever iD, Tine Goovaerts, Thomas B. Hansen iD, Scott Kuersten iD, Nele Nijs iD, Tom Taghon iD, Karim Y. Vermaelen iD, Ken R. Bracke iD, Yvan Saeys iD, Tim De Meyer iD, Nandan Deshpande iD, Govardhan Anande iD, Ting-Wen Chen iD, Marc Ronald Wilkins iD, Ashwin Unnikrishnan iD, Katleen De Preter iD, , Pieter Mestdagh iD

Abstract

The human transcriptome consists of various RNA biotypes including multiple types of non-coding RNAs (ncRNAs). Current ncRNA compendia remain incomplete partially because they are almost exclusively derived from the interrogation of small- and polyadenylated RNAs. Here, we present a more comprehensive atlas of the human transcriptome that is derived from matching polyA-, total-, and small-RNA profiles of a heterogeneous collection of nearly 300 human tissues and cell lines. We report on thousands of novel RNA species across all major RNA biotypes, including a hitherto poorly-cataloged class of non-polyadenylated single-exon long non-coding RNAs. In addition, we exploit intron abundance estimates from total RNA-sequencing to test and verify functional regulation by novel non-coding RNAs. Our study represents a substantial expansion of the current catalogue of human ncRNAs and their regulatory interactions. All data, analyses, and results are available in the R2 web portal and serve as a basis to further explore RNA biology and function.

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