Dataset features

Specifications


Application: RNA-seq analysis
Number of samples: 2
Release date: Sep 17 2018
Last update date: Oct 23 2018
Access: Public
Genes: CD226
Dataset link The APT complex is involved in non-coding RNA transcription and is distinct from CPF [PAR-CLIP]

Experimental Protocol


In this study, we used photoactivatable ribonucleoside-enhanced crosslinking and immuno-precipitation (PAR-CLIP) and ChIP-seq to map direct protein-RNA interactions and protein-DNA interactions, respectively, in vivo. We applied these methods to subunits of the CPF and APT complexes of the yeast Saccharomyces cerevisiae. Both ChIP and PAR-CLIP occupancy profiles suggested that the APT defining subunit Syc1 is preferentially associated with sn/snoRNA genes and transcripts. Thus, we also investigated RNA synthesis in vivo using metabolic labeling with 4-thiouracil, followed by sequencing of the newly synthesized, labeled RNA (4tU-seq) and compared syc1 knock-out cells to wild-type.

Repositories


GEO

GSE114302

ENA

SRP145323

BioProject

PRJNA470900

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Contact


Michael Lidschreiber