Sample overview

Sample ID: Sample_1214
Biosample name: Pancreatic islet
Biosample type: Tissue
Tissue type: Pancreas
Cancer type: Normal
Region number: 21834
Length: 11161.956 kb
GEO/SRA ID: GSM1978247
Mean insert size: 111.640
Standard deviation: 83.125
TSS enrichment score: 12.60870
FRiP: 0.02093
Diasgnostic plot
The percentages of read pairs in FR, RF, and TANDEM orientations.


Accessible chromatin region of Pancreatic islet

Use these accessible chromatin regions to analyze or download

TF footprint of Pancreatic islet


Peak annotation visualization of Pancreatic islet

Plot A

Plot B

Plot A: a pie chart of annotated genomic features.
Note A: the proportion of annotating genomic region (Promoter, 5'UTR, 3'UTR, Exon, Intron, Downstream and Intergenic).
Plot B: a heatmap of peaks binding to TSS region.
Note B: the profile of ATAC peaks binding to TSS region (+/- 1kb).

Software and parameters used

Read mapping: bowtie2(v2.2.5) -p 10 -X 2000 -x -S
Duplicates Removing: picard MarkDuplicates REMOVE_DUPLICATES=true ASSUME_SORTED=true
Peak calling: macs2(2.1.2) --broad--SPMR --nomodel --extsize 200 -q 0.01
Trimming the adapter: trim_galore --phred33 --stringency 3 --length 20