Cho et al. 2012 (PRJNA158351)

General Details

Title Transcriptome-wide identification of LIN28A targets in mouse embryonic stem cell (A3-1) [Illumina Seq]
Organism
Number of Samples 2
Release Date 2012/04/09 00:00
Sequencing Types
Protocol Details

Study Links

Repository Details

SRA SRP012118
ENA SRP012118
GEO
BioProject PRJNA158351

Publication

Title
Authors Cho J,Chang H,Kwon SC,Kim B,Kim Y,Choe J,Ha M,Kim YK,Kim VN
Journal Cell
Publication Date 2012 Nov 9
Abstract LIN28 plays a critical role in developmental transition, glucose metabolism, and tumorigenesis. At the molecular level, LIN28 is known to repress maturation of let-7 microRNAs and enhance translation of certain mRNAs. In this study, we obtain a genome-wide view of the molecular function of LIN28A in mouse embryonic stem cells by carrying out RNA crosslinking-immunoprecipitation-sequencing (CLIP-seq) and ribosome footprinting. We find that, in addition to let-7 precursors, LIN28A binds to a large number of spliced mRNAs. LIN28A recognizes AAGNNG, AAGNG, and less frequently UGUG, which are located in the terminal loop of a small hairpin. LIN28A is localized to the periendoplasmic reticulum (ER) area and inhibits translation of mRNAs that are destined for the ER, reducing the synthesis of transmembrane proteins, ER or Golgi lumen proteins, and secretory proteins. Our study suggests a selective regulatory mechanism for ER-associated translation and reveals an unexpected role of LIN28A as a global suppressor of genes in the secretory pathway. Copyright © 2012 Elsevier Inc. All rights reserved.
PMC
PMID 23102813
DOI
Run Accession Study Accession Scientific Name Cell Line Library Type Treatment GWIPS-viz Trips-Viz Reads BAM BigWig (F) BigWig (R)
SRR458756 PRJNA158351 Mus musculus A3-1 Ribo-Seq
SRR458757 PRJNA158351 Mus musculus A3-1 Ribo-Seq
Run Accession Study Accession Scientific Name Cell Line Library Type Treatment GWIPS-viz Trips-Viz Reads BAM BigWig (F) BigWig (R)

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