Aeschimann et al. 2017 (PRJNA318054)

General Details

Title Post-transcriptional regulation by the let-7 microRNA and the TRIM-NHL protein LIN41 [RNA-seq]
Organism
Number of Samples 50
Release Date 2016/04/11 00:00
Sequencing Types
Protocol Details

Study Links

Repository Details

SRA SRP073117
ENA SRP073117
GEO GSE80157
BioProject PRJNA318054

Publication

Title
Authors Aeschimann F,Kumari P,Bartake H,Gaidatzis D,Xu L,Ciosk R,Großhans H
Journal Molecular cell
Publication Date 2017 Feb 2
Abstract The RNA-binding protein (RBP) LIN41, also known as LIN-41 or TRIM71, is a key regulator of animal development, but its physiological targets and molecular mechanism of action are largely elusive. Here we find that this RBP has two distinct mRNA-silencing activities. Using genome-wide ribosome profiling, RNA immunoprecipitation, and in vitro-binding experiments, we identify four mRNAs, each encoding a transcription factor or cofactor, as direct physiological targets of C. elegans LIN41. LIN41 silences three of these targets through their 3' UTRs, but it achieves isoform-specific silencing of one target, lin-29A, through its unique 5' UTR. Whereas the 3' UTR targets mab-10, mab-3, and dmd-3 undergo transcript degradation, lin-29A experiences translational repression. Through binding site transplantation experiments, we demonstrate that it is the location of the LIN41-binding site that specifies the silencing mechanism. Such position-dependent dual activity may, when studied more systematically, emerge as a feature shared by other RBPs. Copyright © 2017 Elsevier Inc. All rights reserved.
PMC
PMID 28111013
DOI
Run Accession Study Accession Scientific Name Cell Line Library Type Treatment GWIPS-viz Trips-Viz Reads BAM BigWig (F) BigWig (R)
SRR3356596 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356597 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356598 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356599 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356600 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356601 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356602 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356603 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356604 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356605 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356606 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356607 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356608 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356609 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356610 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356611 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356613 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356615 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356617 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356619 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356621 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356623 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356625 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356627 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356629 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356631 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356632 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356633 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356634 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356635 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356636 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356637 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356638 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356639 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356640 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356641 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356642 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356643 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356644 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356645 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356646 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356647 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356648 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356649 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356650 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356651 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356652 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356653 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356654 PRJNA318054 Caenorhabditis elegans RNA-Seq
SRR3356655 PRJNA318054 Caenorhabditis elegans RNA-Seq
Run Accession Study Accession Scientific Name Cell Line Library Type Treatment GWIPS-viz Trips-Viz Reads BAM BigWig (F) BigWig (R)

ⓘ For more Information on the columns shown here see: About