Dataset features

Specifications


Application: RNA-seq analysis
Number of samples: 14
Release date: Aug 26 2018
Last update date: Nov 30 2018
Access: Public
Chemicals: Cytidine
Dataset link The RNA-binding protein ROD1/PTBP3 cotranscriptionally defines AID-loading sites to mediate antibody class switch in mammalian genomes

Experimental Protocol


ROD1/PTBP3 CLIP-seq was performed with naïve splenic B cells and LPS-activated B cells, and two biological replicates were labeled as Rep1 and Rep2. Two biological repeats of AID CLIP-seq in LPS-activated B cells were labeled as Rep1 and Rep2; in addition, two AID CLIP-seq libraries were also generated upon the depletion of ROD1/PTBP3. For comparison, IgG antibodies were applied to generate two replicates of CLIP-seq libraries for negative control purposes. To examine whether ROD1/PTBP3 ablation alter the global nascent RNA levels, two biological repeats of GRO-seq were performed on LPS-activated B cells.

Repositories


GEO

GSE94662

ENA

SRP099055

BioProject

PRJNA371775

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Contact


Yuanchao Xue