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Series GSE94386 Query DataSets for GSE94386
Status Public on Aug 14, 2017
Title RNA editing is the essential function of ADAR1 and, in the absence of MDA5, is dispensable for normal adult homeostasis [mmPCR-seq]
Organism Mus musculus
Experiment type Other
Summary Adenosine-to-Inosine (A-to-I) editing of dsRNA by ADAR proteins is a pervasive feature of the epitranscriptome. There are estimated to be over 100 million potential A-to-I editing sites in humans and A-to-I editing can have varying consequences for gene expression. Whilst editing resulting in protein recoding defines the role of ADAR2, ADAR1 has been proposed to have both editing-dependent and -independent functions. The relative contribution of these putative functions to ADAR1 biology is unclear. We demonstrate that the absence of ADAR1-mediated editing is well tolerated when the cytosolic dsRNA sensor MDA5 is deleted. These mice have normal hematopoiesis, tissue patterning and life span. A direct comparison of the complete deletion of ADAR1 and the specific loss of A-to-I editing activity demonstrates that RNA editing is the only essential function of ADAR1 in adult mice. Therefore, preventing MDA5 substrate formation by endogenous RNA is the essential in vivo function of ADAR1-mediated editing.
 
Overall design Microfluidics-based multiplex PCR and deep sequencing (mmPCR-seq) identification of A-to-I editing sites in 8 tissues from 12 week old mice in a E861A point mutant of ADAR on a MDA5 knockout background
 
Contributor(s) Heraud-Farlow JE, Chalk AM, Linder SE, Li Q, Taylor S, White JM, Liddicoat BJ, Gupte A, Li JB, Walkley CR
Citation(s) 28874170
Submission date Feb 01, 2017
Last update date May 15, 2019
Contact name Alistair Morgan Chalk
E-mail(s) achalk@svi.edu.au, alistair.chalk@gmail.com
Organization name St Vincent's Institute of Medical Research
Department Stem Cell Regulation Unit
Lab Walkley
Street address 9 Princes st, Fitzroy
City Melbourne
State/province VIC
ZIP/Postal code 3065
Country Australia
 
Platforms (1)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (48)
GSM2474476 Adar1wt Ifih1 knockout Kidney replicate 1
GSM2474477 Adar1wt Ifih1 knockout Kidney replicate 2
GSM2474478 Adar1wt Ifih1 knockout Kidney replicate 3
This SubSeries is part of SuperSeries:
GSE94389 RNA editing is the essential function of ADAR1 and, in the absence of MDA5, is dispensable for normal adult homeostasis
Relations
BioProject PRJNA369546
SRA SRP098701

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
GSE94386_RAW.tar 13.9 Mb (http)(custom) TAR (of TXT)
GSE94386_rawEditData.noFilter.coverage.gct.gz 906.8 Kb (ftp)(http) GCT
GSE94386_rawEditData.noFilter.editLevels.gct.gz 501.6 Kb (ftp)(http) GCT
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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