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Series GSE75439 Query DataSets for GSE75439
Status Public on Dec 03, 2015
Title Identification of RNAs bound to endogenous PUM2 in HCT116 cells
Organism Homo sapiens
Experiment type Other
Summary Purpose: PUMILIO proteins are known to repress target genes by binding to PUMILIO response elements (PREs) in target mRNAs. The goal of this study was to demonstrate binding of endogenous PUM2 to the noncoding RNA NORAD and to identify PUM2 target genes in NORAD wild-type and knockout HCT116 cells.
Methods: PAR-CLIP was performed with endogenous PUM2 in HCT116 cells and isogenic NORAD knockout cells.
Results: Endogenous PUM2 binds to NORAD in HCT116 cells. In addition, PUM2 target genes were identified in HCT116 cells.
Conclusions: PUM2 binds to NORAD through multiple PREs on NORAD. Compared to all other PUM2 target genes in HCT116, NORAD is the preferred binding partner of endogenous PUM2.
Overall design RNAs bound to endogenous PUM2 were identified in HCT116 NORAD wild-type and knockout cells using PAR-CLIP and deep sequencing using Illumina NextSeq 500.
Contributor(s) Lee S, Kopp F, Chang T, Chen B, Xie Y, Mendell JT
Citation(s) 26724866
Submission date Nov 27, 2015
Last update date May 15, 2019
Contact name Joshua Mendell
Organization name UT Southwestern Medical Center Dallas
Department Molecular Biology
Street address 5323 Harry Hines Boulevard
City Dallas
State/province TX
ZIP/Postal code 75390-9148
Country USA
Platforms (1)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (2)
GSM1960353 WT
BioProject PRJNA304724
SRA SRP066897

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Supplementary file Size Download File type/resource
GSE75439_RAW.tar 20.0 Kb (http)(custom) TAR (of TXT)
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Raw data are available in SRA
Processed data provided as supplementary file

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