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Sample GSM6597211 Query DataSets for GSM6597211
Status Public on Jan 19, 2023
Title beta_biological_replicate_3
Sample type SRA
Source name FACS-sorted beta cells
Organism Mus musculus
Characteristics cell type: beta
strain: mouse
status: healthy
Extracted molecule genomic DNA
Extraction protocol mIns1-H2b-mCherry [1] x Rosa-LSL-YFP crossed to either Sst-Cre [44] or Gcg-Cre [45] triple transgenic mice were pooled by sex, each sample yielding a median of 20,000 cells, with islet isolation and FACS-sorting as previously described (Supplemental Fig. 1) [1, 46-48].
Single-end 50 bp reads were generated after library size selection yielded an average of 450 bp fragments and sequenced as previously described using NexteraDNA library protocol [30].
Library strategy ATAC-seq
Library source genomic
Library selection other
Instrument model Illumina NextSeq 500
Description chromatin accessibility
Data processing FastQC
Picard Tools
Assembly: mm10
Supplementary files format and content: Aligned BAM Files
Submission date Sep 22, 2022
Last update date Jan 19, 2023
Contact name Mark O. Huising
Organization name University of California, Davis
Department Neurobiology, Physiology and Behavior
Lab Huising Lab
Street address One Shields Ave
City Davis
State/province CA
ZIP/Postal code 95616
Country USA
Platform ID GPL19057
Series (1)
GSE213970 Chromatin accessibility differences between alpha, beta, and delta cells identifies common and cell type-specific enhancers
BioSample SAMN30964218
SRA SRX17676049

Supplementary file Size Download File type/resource
GSM6597211_delta5_S24_L007_R1_001.SE.tagAlign.gz_peaks.narrowPeak.gz 1.9 Mb (ftp)(http) NARROWPEAK
GSM6597211_delta5_S24_L007_R1_001.bam 495.2 Mb (ftp)(http) BAM
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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