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Series GSE85887 Query DataSets for GSE85887
Status Public on Jul 15, 2020
Title The impact of YTHDF2 knockout on the distribution of 5-methylcytosine in RNA
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary 5-methylcytosine is an important epigenetic modification found in both DNA and RNA. Transcriptome-wide mapping of 5-methylcytosine revealed that, after CRISPR-Cas9-mediated knockout of YTHDF2 gene, 545 sites displayed significant changes in 5-methylcytosine levels, with the majority of 5-methylcytosine sites in ribosomal RNA exhibiting substantially increased levels of methylation. Our data demonstrateda broader role of YTHDF2 in the post-transcriptional regulation of RNA.
 
Overall design Combine RNA bisulfite conversion with next-generation sequencing to monitor the variation of 5-methylcytosine in the transcriptome of HEK293T and isogenic cells with YTHDF2 gene being knocked out.
 
Contributor(s) Dai X, Li L, Li J, You C, Gonzalez G, Miao W, Hu J, Fu L, Xu Y, Gu W, Wang Y
Citation missing Has this study been published? Please login to update or notify GEO.
Submission date Aug 22, 2016
Last update date Jul 18, 2020
Contact name Weifeng Gu
Organization name University of California at Riverside
Department Molecular, Cell and Systems Biology
Lab Weifeng Gu
Street address 900 University Ave
City Riverside
State/province California
ZIP/Postal code 92521
Country USA
 
Platforms (1)
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
Samples (6)
GSM2286778 293T-1
GSM2286779 293T-2
GSM2286780 293T-3
Relations
BioProject PRJNA339688
SRA SRP082495

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
GSE85887_RAW.tar 644.4 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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