Sample overview

Sample ID: Sample_0523
Biosample name: primary motor cortex
Biosample type: Other
Tissue type: Brain
Cancer type: Other
Region number: 13808
Length: 4803.423 kb
GEO/SRA ID: SRR5367807
Mean insert size: 125.214
Standard deviation: 74.818
TSS enrichment score: 6.84641
FRiP: 0.02087
Diasgnostic plot
The percentages of read pairs in FR, RF, and TANDEM orientations.


Accessible chromatin region of primary motor cortex

Use these accessible chromatin regions to analyze or download

TF footprint of primary motor cortex


Peak annotation visualization of primary motor 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