Sample overview

Sample ID: Sample_1470
Biosample name: Neutrophile
Biosample type: Other
Tissue type: Blood
Cancer type: Other
Region number: 7806
Length: 4077.097 kb
GEO/SRA ID: SRR4269921
Mean insert size: 223.836
Standard deviation: 76.191
TSS enrichment score: 3.58568
FRiP: 0.02411
Diasgnostic plot
The percentages of read pairs in FR, RF, and TANDEM orientations.


Accessible chromatin region of Neutrophile

Use these accessible chromatin regions to analyze or download

TF footprint of Neutrophile


Peak annotation visualization of Neutrophile

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