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Series GSE98085 Query DataSets for GSE98085
Status Public on Aug 01, 2017
Title YTHDC2 regulates spermatogenesis through promoting the translation of N6-methyladenosine-modified RNA
Organisms Homo sapiens; Mus musculus
Experiment type Other
Summary N6-methyladenosine (m6A) is the most common internal modification in eukaryotic mRNA. It is dynamically installed and removed, and acts as an essential layer of mRNA metabolism, regulating biological processes including stem cell pluripotency, cell differentiation, and energy homeostasis. m6A is recognized by selective binding proteins; YTHDF1 and YTHDF3 work in concert to promote the translation of m6A-containing mRNAs, YTHDF2 expedites mRNA decay, and YTHDC1 affects the splicing of its targets. The biological function of YTHDC2, the final member of the YTH protein family, remains unknown. We report that YTHDC2 selectively binds m6A along its consensus motif GGACU. YTHDC2 promotes translation of its targets, and associates with cellular fractions involved in translation initiation. Ythdc2 knockout mice are infertile and have significantly smaller testes compared to those of littermates. In the testes, Ythdc2 is temporally expressed as meiosis begins, and germ cells of Ythdc2 knockout mice do not develop past the spermatogonium stage. Thus, YTHDC2 is an m6A binding protein that plays essential roles in spermatogenesis.
 
Overall design We used CLIP-seq replicates and RIP-seq replicates to identify the binding targets and sites of YTHDC2. We used m6A-seq to identify changes in m6A and RNA expression in Ythdc2-/- mice
 
Contributor(s) Hsu PJ, Zhu Y, Ma H, Cui Y, Shi X, Lu Z, Shi H, Luo G, Dai Q, Shen B, He C
Citation(s) 28809393
Submission date Apr 23, 2017
Last update date May 15, 2019
Contact name zhike lu
E-mail(s) zhikelu@gmail.com
Organization name University of Chicago
Department department of chemistry
Street address 5801 South Ellis Avenue
City Chicago
State/province IL
ZIP/Postal code 60637
Country USA
 
Platforms (2)
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
GPL21103 Illumina HiSeq 4000 (Mus musculus)
Samples (16)
GSM2586903 YTHDC2-CLIP-seq-repl.1
GSM2586904 YTHDC2-CLIP-seq-repl.2
GSM2586905 YTHDC2-RIP-seq-IP-repl.1
Relations
BioProject PRJNA383941
SRA SRP104994

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
GSE98085_YTHDC2_CLIPseq.xlsx 1.9 Mb (ftp)(http) XLSX
GSE98085_YTHDC2_PARCLIP.xlsx 119.8 Kb (ftp)(http) XLSX
GSE98085_YTHDC2_RIPseq.xlsx 1.2 Mb (ftp)(http) XLSX
GSE98085_YTHDC2_m6Aseq.xlsx 8.3 Mb (ftp)(http) XLSX
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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