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Series GSE60426 Query DataSets for GSE60426
Status Public on Sep 25, 2014
Title mRNA destabilization is the dominant effect of mammalian microRNAs by the time substantial repression ensues (sequencing)
Organisms Homo sapiens; Mus musculus
Experiment type Expression profiling by high throughput sequencing
Non-coding RNA profiling by high throughput sequencing
Third-party reanalysis
Summary MicroRNAs (miRNAs) regulate target mRNAs through a combination of translational repression and mRNA destabilization, with mRNA destabilization dominating at steady state in the few contexts examined globally. Here, we extend the global steady-state measurements to additional mammalian contexts and find that regardless of the miRNA, cell type, growth condition, or translational state, mRNA destabilization explains most (66%–>90%) miRNA-mediated repression. We also determine the relative dynamics of translational repression and mRNA destabilization for endogenous mRNAs as a miRNA is induced. Although translational repression occurs rapidly, its effect is relatively weak, such that by the time consequential repression ensues, the effect of mRNA destabilization dominates. These results imply that consequential miRNA-mediated repression is largely irreversible and provide other insights into the nature of miRNA-mediated regulation. They also simplify future studies, dramatically extending the known contexts and time points for which monitoring mRNA changes captures most of the direct miRNA effects.
 
Overall design 85 samples from a variety of cell types and species
 
Contributor(s) Eichhorn SW, Guo H, McGeary SE, Rodriguez-Mias RA, Shin C, Baek D, Hsu S, Ghoshal K, Villén J, Bartel DP
Citation(s) 25263593
Submission date Aug 14, 2014
Last update date May 15, 2019
Contact name Stephen Eichhorn
E-mail(s) eichhorn@wi.mit.edu
Organization name Whitehead Institute for Biomedical Research
Department Biology
Lab Bartel
Street address 9 Cambridge Center
City Cambridge
State/province MA
ZIP/Postal code 02142
Country USA
 
Platforms (4)
GPL9115 Illumina Genome Analyzer II (Homo sapiens)
GPL9250 Illumina Genome Analyzer II (Mus musculus)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
Samples (85)
GSM1479569 wild-type B cell 2 h RNA
GSM1479570 wild-type B cell 4 h RNA
GSM1479571 wild-type B cell 8 h RNA
This SubSeries is part of SuperSeries:
GSE61073 mRNA destabilization is the dominant effect of mammalian microRNAs by the time substantial repression ensues
Relations
Reanalysis of GSM546921
Reanalysis of GSM546920
Reanalysis of GSM546925
Reanalysis of GSM546924
Reanalysis of GSM546923
Reanalysis of GSM546922
Reanalysis of GSM546988
Reanalysis of GSM546987
Reanalysis of GSM546990
Reanalysis of GSM546989
BioProject PRJNA258219
SRA SRP045501

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE60426_MockHEK293T.txt.gz 341.6 Kb (ftp)(http) TXT
GSE60426_MockHeLa.txt.gz 321.2 Kb (ftp)(http) TXT
GSE60426_MockU2OS_dep_RNA.txt.gz 342.2 Kb (ftp)(http) TXT
GSE60426_MockU2OS_paRNA.txt.gz 317.8 Kb (ftp)(http) TXT
GSE60426_RAW.tar 1.2 Mb (http)(custom) TAR (of TXT)
GSE60426_miR-122_ko_liver.txt.gz 353.3 Kb (ftp)(http) TXT
GSE60426_miR-122_liver_changes.txt.gz 63.2 Kb (ftp)(http) TXT
GSE60426_miR-122_wt_liver.txt.gz 348.2 Kb (ftp)(http) TXT
GSE60426_miR-124_contact_inhibited_3T3_0h.txt.gz 312.3 Kb (ftp)(http) TXT
GSE60426_miR-124_contact_inhibited_3T3_10h.txt.gz 312.8 Kb (ftp)(http) TXT
GSE60426_miR-124_contact_inhibited_3T3_12h.txt.gz 312.3 Kb (ftp)(http) TXT
GSE60426_miR-124_contact_inhibited_3T3_4h.txt.gz 312.9 Kb (ftp)(http) TXT
GSE60426_miR-124_contact_inhibited_3T3_6h.txt.gz 312.2 Kb (ftp)(http) TXT
GSE60426_miR-124_contact_inhibited_3T3_8h.txt.gz 312.1 Kb (ftp)(http) TXT
GSE60426_miR-124_contact_inhibited_3T3_changes.txt.gz 608.6 Kb (ftp)(http) TXT
GSE60426_miR-155_Bcell_changes.txt.gz 243.1 Kb (ftp)(http) TXT
GSE60426_miR-155_HeLa.txt.gz 327.8 Kb (ftp)(http) TXT
GSE60426_miR-155_HeLa_changes.txt.gz 139.0 Kb (ftp)(http) TXT
GSE60426_miR-155_U2OS_dep_RNA.txt.gz 339.0 Kb (ftp)(http) TXT
GSE60426_miR-155_U2OS_paRNA.txt.gz 314.4 Kb (ftp)(http) TXT
GSE60426_miR-155_actively_dividing_3T3_0h.txt.gz 339.6 Kb (ftp)(http) TXT
GSE60426_miR-155_actively_dividing_3T3_12h.txt.gz 337.5 Kb (ftp)(http) TXT
GSE60426_miR-155_contact_inhibited_3T3_0h.txt.gz 315.7 Kb (ftp)(http) TXT
GSE60426_miR-155_contact_inhibited_3T3_12h.txt.gz 317.1 Kb (ftp)(http) TXT
GSE60426_miR-155_contact_inhibited_3T3_4h.txt.gz 316.5 Kb (ftp)(http) TXT
GSE60426_miR-155_contact_inhibited_3T3_8h.txt.gz 314.3 Kb (ftp)(http) TXT
GSE60426_miR-155_contact_inhibited_3T3_changes.txt.gz 367.9 Kb (ftp)(http) TXT
GSE60426_miR-155_ko_Bcell_2h.txt.gz 288.4 Kb (ftp)(http) TXT
GSE60426_miR-155_ko_Bcell_48h.txt.gz 303.2 Kb (ftp)(http) TXT
GSE60426_miR-155_ko_Bcell_4h.txt.gz 295.3 Kb (ftp)(http) TXT
GSE60426_miR-155_ko_Bcell_8h.txt.gz 297.0 Kb (ftp)(http) TXT
GSE60426_miR-155_torin_3T3_0h.txt.gz 312.4 Kb (ftp)(http) TXT
GSE60426_miR-155_torin_3T3_12h.txt.gz 311.9 Kb (ftp)(http) TXT
GSE60426_miR-155_translational_state_analysis.txt.gz 330.9 Kb (ftp)(http) TXT
GSE60426_miR-155_wt_Bcell_2h.txt.gz 293.2 Kb (ftp)(http) TXT
GSE60426_miR-155_wt_Bcell_48h.txt.gz 303.5 Kb (ftp)(http) TXT
GSE60426_miR-155_wt_Bcell_4h.txt.gz 302.1 Kb (ftp)(http) TXT
GSE60426_miR-155_wt_Bcell_8h.txt.gz 299.7 Kb (ftp)(http) TXT
GSE60426_miR-1_HEK293T.txt.gz 337.3 Kb (ftp)(http) TXT
GSE60426_miR-1_HEK293T_changes.txt.gz 145.4 Kb (ftp)(http) TXT
GSE60426_miR-1_HeLa.txt.gz 326.1 Kb (ftp)(http) TXT
GSE60426_miR-1_HeLa_changes.txt.gz 140.1 Kb (ftp)(http) TXT
GSE60426_miR-1_U2OS_changes.txt.gz 274.0 Kb (ftp)(http) TXT
GSE60426_miR-1_U2OS_dep_RNA.txt.gz 335.7 Kb (ftp)(http) TXT
GSE60426_miR-1_U2OS_paRNA.txt.gz 321.4 Kb (ftp)(http) TXT
GSE60426_miR-1_actively_dividing_3T3_0h.txt.gz 340.4 Kb (ftp)(http) TXT
GSE60426_miR-1_actively_dividing_3T3_12h.txt.gz 333.3 Kb (ftp)(http) TXT
GSE60426_miR-1_contact_inhibited_3T3_0h.txt.gz 315.2 Kb (ftp)(http) TXT
GSE60426_miR-1_contact_inhibited_3T3_12h.txt.gz 315.3 Kb (ftp)(http) TXT
GSE60426_miR-1_contact_inhibited_3T3_48h.txt.gz 314.3 Kb (ftp)(http) TXT
GSE60426_miR-1_contact_inhibited_3T3_4h.txt.gz 314.5 Kb (ftp)(http) TXT
GSE60426_miR-1_contact_inhibited_3T3_8h.txt.gz 316.4 Kb (ftp)(http) TXT
GSE60426_miR-1_contact_inhibited_3T3_changes.txt.gz 486.3 Kb (ftp)(http) TXT
GSE60426_miR-1_torin_3T3_0h.txt.gz 312.9 Kb (ftp)(http) TXT
GSE60426_miR-1_torin_3T3_12h.txt.gz 314.4 Kb (ftp)(http) TXT
GSE60426_miR-1_translational_state_analysis.txt.gz 330.7 Kb (ftp)(http) TXT
GSE60426_miR-223_ko_neutrophil.txt.gz 336.8 Kb (ftp)(http) TXT
GSE60426_miR-223_neutrophil_changes.txt.gz 128.1 Kb (ftp)(http) TXT
GSE60426_miR-223_wt_neutrophil.txt.gz 336.9 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record
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