Technological advances in RNA expression profiling have revealed that the human genome is pervasively transcribed, generating an unexpectedly complex transcriptome, consisting of various classes of RNA molecules and a huge isoform diversity. Many of these RNAs show high tissue specificity, with some being expressed in only one or few cell types. While numerous large-scale RNA-sequencing studies have been performed, samples involved are often complex tissues, masking transcripts expressed in low-frequent cell populations, and sequencing methods typically focus on one class of RNA transcripts.
To developed a more comprehensive atlas of the human transcriptome we profiled a comprehensive sample cohort of nearly 300 human tissues and cell lines by applying matching polyA-, total-, and small-RNA sequencing for a total of 125 Billion reads. By integrating these datasets, we assembled transcripts representing five major RNA biotypes, including mRNAs, lincRNAs, asRNAs, circRNAs, and miRNAs, culminating in a stringently selected transcriptome and its matching expression atlas. Broad intron-coverage from the total RNA-sequencing data enabled data-driven prediction of transcriptional and post-transcriptional modulation of gene expression by ncRNAs. The resulting RNA Atlas dataset and analysis products serve as a resource to mine the expression and regulatory landscapes of multiple RNA biotypes and contains a unique collection of non-coding RNAs together with their functional interpretation.
BSc Biotechnology and Postgraduate Course in Bioinformatics (National University of Rosario, Argentina)
- The RNA Atlas, a single nucleotide resolution map of the human transcriptome. Lorenzi L, Chiu H-S, Cobos FA, et al. bioRxiv. January 2019:807529. doi:10.1101/807529
- Long non-coding RNA expression profiling in cancer: challenges and opportunities. Lorenzi L, Avila Cobos F, Decock A, Everaert C, Helsmoortel H, Lefever S, Verboom K, Volders PJ, Speleman F, Vandesompele J & Mestdagh P. Genes, Chromosomes and Cancer. 2018. doi:10.1002/gcc.22709.