Guo et al. 2010 (PRJNA129411)

General Details

Title Analysis of mir-223 knockout cultured neutrophils versus wild-type cultured neutrophils, by ribosome profiling and mRNA-Seq
Organism
Number of Samples 4
Release Date 2010/05/26 00:00
Sequencing Types
Protocol Details

Study Links

Repository Details

SRA SRP003554
ENA SRP003554
GEO GSE22001
BioProject PRJNA129411

Publication

Title
Authors Guo H, Ingolia NT, Weissman JS, Bartel DP
Journal Nature
Publication Date 2010 Aug 12
Abstract MicroRNAs (miRNAs) are endogenous approximately 22-nucleotide RNAs that mediate important gene-regulatory events by pairing to the mRNAs of protein-coding genes to direct their repression. Repression of these regulatory targets leads to decreased translational efficiency and/or decreased mRNA levels, but the relative contributions of these two outcomes have been largely unknown, particularly for endogenous targets expressed at low-to-moderate levels. Here, we use ribosome profiling to measure the overall effects on protein production and compare these to simultaneously measured effects on mRNA levels. For both ectopic and endogenous miRNA regulatory interactions, lowered mRNA levels account for most (>/=84%) of the decreased protein production. These results show that changes in mRNA levels closely reflect the impact of miRNAs on gene expression and indicate that destabilization of target mRNAs is the predominant reason for reduced protein output.
PMC PMC2990499
PMID 20703300
DOI
Run Accession Study Accession Scientific Name Cell Line Library Type Treatment GWIPS-viz Trips-Viz Reads BAM BigWig (F) BigWig (R)
SRR065774 PRJNA129411 Mus musculus HeLa Ribo-Seq 0.0
SRR065775 PRJNA129411 Mus musculus HeLa Ribo-Seq 0.0
SRR065779 PRJNA129411 Mus musculus 0.0 Ribo-Seq 0.0
SRR065780 PRJNA129411 Mus musculus 0.0 Ribo-Seq 0.0
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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