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Series GSE139945 Query DataSets for GSE139945
Status Public on Nov 06, 2019
Title ATAC-seq profile of mouse palatal epithelium at E14.5
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary To profile nucleosome free regions of moust palatal epithelium at E14.5, we performed ATAC-seq for isolated palatal epithelium and mesenchyme cells.
Overall design We digested the mouse embryonic palate at E14.5 with 0.25% trypsin-EDTA (Life Technologies) at 4°C for 10 minutes, after which the reaction was stopped using trypsin Inhibitor (Life Technologies). Under a dissecting microscope, the epithelium was isolated for ATAC-seq by gently peeling using microforceps. The remaining tissue, comprised largely of mesenchymal cells, was also collected for control samples. For each biological replicates, 20000 cells from 3 different mouse embryos were used. Three biological replicates were sequenced using HiSeq X Ten.
Contributor(s) Liu H, Cornell RA
Citation(s) 32031521
Submission date Nov 05, 2019
Last update date Oct 07, 2020
Contact name Robert Cornell
Organization name University of Iowa
Department Anatomy and Cell Biology
Street address 1-400 D Bowen Science Bldg. 51 Newton Road
City Iowa City
State/province Iowa
ZIP/Postal code 52242
Country USA
Platforms (1)
GPL21273 HiSeq X Ten (Mus musculus)
Samples (6)
GSM4150380 Mouse palatal epithelium rep1
GSM4150381 Mouse palatal epithelium rep2
GSM4150382 Mouse palatal epithelium rep3
BioProject PRJNA587709
SRA SRP228592

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Supplementary file Size Download File type/resource
GSE139945_RAW.tar 1.2 Gb (http)(custom) TAR (of BED, BW)
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Raw data are available in SRA
Processed data provided as supplementary file

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