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Series GSE38482 Query DataSets for GSE38482
Status Public on Jun 01, 2015
Title ALKBH5 is a New Mammalian Nuclear RNA Demethylase that Affects RNA Metabolism
Organism Mus musculus
Experiment type Other
Summary To identify ALKBH5-binding RNA, PAR-CLIP was performed to pull down ALKBH5-binding RNAs. After digestion with Rnase T1, small RNA-seq was performed. Through analysis of 50 million reads, we have found 933 ALKBH5-binding genes, among which mRNA accounts for 85%. further analysis revealed that ALKBH5 mainly binds to intron and exon region of mRNAs. among 933 genes,64 genes have been reported to be spermatogenesis related, and most of them are functionally related with p53 signaling. we have also found 9 consensus binding motifs based on the clusters significantly detected in RIP sample.
Overall design There are two samples, RIP and CON. RIP sample is the RNA product specifically immunoprecipitated by ALKBH5 antibody, while CON means RNA product nonspecifically bound by IgG and protein A-sepharose 4B。
Contributor(s) Yang Y, Niu Y
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Submission date Jun 05, 2012
Last update date May 15, 2019
Contact name Shuhui Song
Organization name Beijing Institute of Genomics, Chinese Academy of Sciences
Street address No.7 Beitucheng West Road, Chaoyang District, Beijing 100029, PR China
City Beijing
ZIP/Postal code 86
Country China
Platforms (1)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (2)
GSM943238 RIP
GSM943239 CON
BioProject PRJNA167989
SRA SRP013571

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Supplementary file Size Download File type/resource
GSE38482_RIP_binding.txt.gz 107.8 Kb (ftp)(http) TXT
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Processed data are available on Series record

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