Dataset features

Specifications


Application: RNA-seq analysis
Number of samples: 28
Release date: Feb 8 2016
Last update date: Feb 8 2016
Access: Public
Dataset link Antisense Transcripts Impede Uridylation-induced Exonucleolytic Degradation to Generate Guide RNAs

Experimental Protocol


1. we first sequenced guide RNA precursor (Gel-fractioned total cellular RNA 600-1500nt was used) transcripts from three replicates to study the their tail features and also validate observation of sense/antisense accumulation upon perturbation of pre-processing complex based on few cases. 2. we then sequenced mitochondrial small RNA and built a reference for small RNAs using our custom algorithm. We then took the mitochondrial small RNA data and uncovered the sense/antisense pair. 3. We then used CLIP-Seq data to investigate in vivo binding sites and, together with RNA IP-Seq data to understand what determine the relative abundance of sense and antisense pair of the duplex. 4. We used sequenced small mitochondrial RNA in different RNAi experiments (For RNAi experiments, 30-70nt RNA fraction was gel-isolated from total cellular RNAs) to understand which protein will affect the Utail length in mature small mitochondrial RNA.

Repositories


GEO

GSE71292

ArrayExpress

E-GEOD-71292

ENA

SRP061536

BioProject

PRJNA290850

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