Sample overview

Sample ID: Sample_0527
Biosample name: ventrolateral prefrontal cortex
Biosample type: Other
Tissue type: Brain
Cancer type: Other
Region number: 8080
Length: 3060.945 kb
GEO/SRA ID: SRR5367811
Mean insert size: 162.228
Standard deviation: 113.716
TSS enrichment score: 4.00777
FRiP: 0.01380
Diasgnostic plot
The percentages of read pairs in FR, RF, and TANDEM orientations.


Accessible chromatin region of ventrolateral prefrontal cortex

Use these accessible chromatin regions to analyze or download

TF footprint of ventrolateral prefrontal cortex


Peak annotation visualization of ventrolateral prefrontal cortex

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