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Series GSE242304 Query DataSets for GSE242304
Status Public on Sep 06, 2023
Title A high-resolution map of functional miR-181 target sites in the thymus reveals the role of coding sequence targeting and alternative seed binding
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Other
Summary MicroRNAs (miRNAs) are critical post-transcriptional regulators in many biological processes. They act by guiding RNA-induced silencing complexes to miRNA response elements (MREs) in target mRNA, resulting in translational inhibition and/or mRNA degradation. Efficient targeting depends on a combination of biochemically established targeting rules and contextual factors of a given miRNA and cell type. Here, we generated a high-resolution map of miR-181 MREs to define the targeting rules of miRNA miR-181a/b-1 in murine T-cell development. We uncovered a broad array of novel functional targets of miR-181 and demonstrated that miR-181 acts predominantly through RNA destabilization. High-resolution analysis validated the dominance of seed matches. Critically, we also discovered a unique alternative seed match for miR-181 and identified a distinct group of targets controlled by translational inhibition. In conclusion, deep profiling of miRNA MREs in primary cells is critical to expand physiologically relevant miRNA targetomes and helps to establish context-dependent miRNA targeting rules.
 
Overall design Ribosome footprinting and RNAseq were performed with mouse thymocytes isolated from 3 WT and 3 miR-181a/b-1 KO mice.
 
Contributor(s) Verheyden NA, Klostermann M, Brüggemann M, Scholz A, Amr S, Lichtenthäler C, Münch C, Schmid T, Zarnack K, Krueger A
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Submission date Sep 05, 2023
Last update date Sep 06, 2023
Contact name Andreas Krueger
E-mail(s) andreas.krueger@immu.bio.uni-giessen.de
Organization name Justus Liebig University
Lab Molecular Immunology
Street address Schubertstr. 81
City Gießen
ZIP/Postal code 35392
Country Germany
 
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (12)
GSM7757939 RNAseq WT 1
GSM7757940 RNAseq WT 2
GSM7757941 RNAseq WT 3
This SubSeries is part of SuperSeries:
GSE242306 mouse thymocytes
Relations
BioProject PRJNA1013070

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SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE242304_RF_masterframe.csv.gz 1.2 Mb (ftp)(http) CSV
GSE242304_RFadjusted_countmatrix.csv.gz 392.3 Kb (ftp)(http) CSV
GSE242304_RNA_masterframe.csv.gz 1.3 Mb (ftp)(http) CSV
GSE242304_RNAadjusted_countmatrix.csv.gz 383.7 Kb (ftp)(http) CSV
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Processed data are available on Series record

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