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Series GSE138473 Query DataSets for GSE138473
Status Public on Dec 31, 2020
Title Capture and identification of the eIF4E:mRNA interactome in human cells
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Here we develop a novel methodology, capCLIP, to capture and identify mRNA interactions with the major cellular cap-binding protein eIF4E.
 
Overall design HeLa cells in which a 3X-flag epitope tag has been introduced on to the N-terminal end of endogenous eIF4E protein were treated with either 100 nM rapamycin (or DMSO carrier along) for 2 hours, and then subject to 350 mJ/cm2 of UV irradiation to crosslink eIF4E to the m7G cap of mRNA. Biological replicates have been done for each treatment condition.
Hela cells in which a 3X-flag epitope tag has been introduced on to the N-terminal end of endogenous eIF4E protein were serum-starved overnight then pre-treated for 1 hour with either 100 nM eFT-508 or with vehicle DMSO. Cells were then stimulated for 30 minutes with 500 nM PMA to activate MAP kinase signalling and thus MNK activity, and then subject to 350 mJ/cm2 of UV irradiation to crosslink eIF4E to the m7G cap of mRNA. Biological replicates have been done for each treatment condition.
 
Contributor(s) Jensen K, Toubia J
Citation(s) 34255842
Submission date Oct 06, 2019
Last update date Aug 09, 2021
Contact name Kirk B Jensen
E-mail(s) kirk.jensen@sahmri.com
Organization name South Australian Health & Medical Research Institute
Department Lifelong Health
Lab Cell Signalling & Gene Expression Group
Street address North Terrace
City Adelaide
State/province South Australia
ZIP/Postal code 5000
Country Australia
 
Platforms (1)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (8)
GSM4109521 flag-eIF4E HeLa cells; DMSO only; biological replicate #1
GSM4109522 flag-eIF4E HeLa cells; DMSO only; biological replicate #2
GSM4109523 flag-eIF4E HeLa cells; rapamycin treatment; biological replicate #1
Relations
BioProject PRJNA576078
SRA SRP224550

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Supplementary file Size Download File type/resource
GSE138473_RAW.tar 8.2 Mb (http)(custom) TAR (of BED, NARROWPEAK, TSV)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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