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Series GSE147440 Query DataSets for GSE147440
Status Public on Dec 31, 2020
Title Identification of m6A residues at single nucleotide resolution using eCLIP and an accessible custom analysis pipeline
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary We have developed a modified eCLIP-based method (meCLIP) to identify m6A residues at single-nucleotide resolution. By coupling the improvements of eCLIP with an easy-to-use computational pipeline, we have successfully identified over 50,000 unique m6A residues in the two breast cancer cell lines that were analyzed (MCF-7 and MDA-MB-231) and over 8,000 unique residues in HEK-293 cells. We compared these residues to the sites called using the currently most utilized m6A identification method (miCLIP).
Overall design m6A identification in 3 cell lines (MCF-7, MDA-MB-231, and HEK-293) using modified eCLIP-based library preparation and custom analysis pipeline
Contributor(s) Roberts JT, Johnson AM
Citation(s) 33376190
Submission date Mar 24, 2020
Last update date Mar 05, 2021
Contact name Justin Roberts
Organization name University of Colorado School of Medicine
Street address 13001 East 17th Place
City Aurora
State/province CO
ZIP/Postal code 80045
Country USA
Platforms (1)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (17)
GSM4970390 meCLIP_MCF7_rep1_IP
GSM4970391 meCLIP_MCF7_rep2_IP
GSM4970392 meCLIP_MCF7_rep2_INPUT
BioProject PRJNA614917
SRA SRP253857

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
GSE147440_RAW.tar 4.4 Gb (http)(custom) TAR (of BAI, BAM, BED, XLS)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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