GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE70801 Query DataSets for GSE70801
Status Public on Apr 21, 2016
Title Profile of RNAs bound by wild-type (WT) or R534H variant of DDX3 with or without Sodium Arsenite treatment [iCLIP-Seq]
Organism Homo sapiens
Experiment type Other
Summary By iCLIP-seq, we demonstrated that DDX3 binds to specific sites on 18S ribosomal RNA and to messenger RNAs at 5’ leader and guanidine-rich sequences immediately upstream of ribosome-dense regions and that arsenite treatment redistributes DDX3 binding from 5'UTR to CDS, which is attenuated by DDX3 R534H.
Overall design Cells were treated with or without sodium arsenite. RNAs crosslinked by UV to FLAG-tagged DDX3 WT or DDX3 R534H were immunoprecipitated sequentially, first with anti-FLAG antibody and second with anti-DDX3 antibody, then sequenced.
Contributor(s) Oh S, Flynn RA, Chang HY, Cho Y
Citation(s) 27058758
Submission date Jul 11, 2015
Last update date May 15, 2019
Contact name Sekyung Oh
Phone 650-725-3354
Organization name Stanford University School of Medicine
Department Neurology and Neurological Sciences
Street address 1201 Welch Road, MSLS P224
City Stanford
State/province CA
ZIP/Postal code 94305
Country USA
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (8)
GSM1819209 DDX3 R534H Ars iCLIP rep1
GSM1819210 DDX3 R534H Ars iCLIP rep2
GSM1819211 DDX3 R534H iCLIP rep1
This SubSeries is part of SuperSeries:
GSE70804 Profiles of ribosome-associated mRNAs regulated by expression of wild-type (WT) or R534H variant of DDX3 with or without Sodium Arsenite treatment
BioProject PRJNA289566
SRA SRP060675

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 2.9 Mb (ftp)(http) BW 3.2 Mb (ftp)(http) BW 5.3 Mb (ftp)(http) BW 5.3 Mb (ftp)(http) BW
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap