Sample overview

Sample ID: Sample_0029
Biosample name: CD56Dim natural killer cell
Biosample type: Primary Cell
Tissue type: Blood
Cancer type: Normal
Region number: 40745
Length: 25568.718 kb
GEO/SRA ID: SRR6955605
Mean insert size: 194.716
Standard deviation: 143.242
TSS enrichment score: 63.48390
FRiP: 0.32524
Diasgnostic plot
The percentages of read pairs in FR, RF, and TANDEM orientations.


Accessible chromatin region of CD56Dim natural killer cell

Use these accessible chromatin regions to analyze or download

TF footprint of CD56Dim natural killer cell


Peak annotation visualization of CD56Dim natural killer cell

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