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E-GEOD-76193 - The human cellular nucleic acid binding protien binds G-rich elements close to translation initiation sires and promotes translation. [PAR-CLIP]

Status
Released on 8 January 2016, last updated on 16 January 2016
Organism
Homo sapiens
Samples (1)
Protocols (2)
Description
CNBP is a eukaryote-conserved nucleic-acid binding protein required in mammals for embryonic development. It contains seven CCHC-type zinc-finger domains and was suggested to act as a nucleic acid chaperone, as well as a transcription factor. Here, we identify all CNBP isoforms as cytoplasmic messenger RNA (mRNA)-binding proteins. Using Photoactivatable Ribonucleoside Enhanced Cross-linking and Immunoprecipitation, we mapped its binding sites on RNA at nucleotide-level resolution on a genome-wide scale and find that CNBP interacted with 3961 mRNAs in human cell lines, preferentially at a G-rich motif close to the AUG start codon on mature mRNAs. Loss- and gain-of-function analyses coupled with system-wide RNA and protein quantification revealed that CNBP did not affect RNA abundance, but rather promoted translation of its targets. This is consistent with an RNA chaperone function of CNBP helping to resolve secondary structures, thus promoting translation. CNBP PAR-CLIP
Experiment type
other 
Contacts
Sanjay Kumar Gupta <sanjay.gupta@uni-wuerzburg.de>, Markus Hafner, Sanjay K Gupta, Stefan Juranek
MINSEQE
Exp. designProtocolsVariablesProcessedSeq. reads
Files
Investigation descriptionE-GEOD-76193.idf.txt
Sample and data relationshipE-GEOD-76193.sdrf.txt
Processed data (1)E-GEOD-76193.processed.1.zip
Links