Sample overview

Sample ID: Sample_1458
Biosample name: cerebellum
Biosample type: Tissue
Tissue type: Brain
Cancer type: Other
Region number: 23875
Length: 8668.947 kb
GEO/SRA ID: SRR6310010
Mean insert size: 140.803
Standard deviation: 92.250
TSS enrichment score: 11.29620
FRiP: 0.03259
Diasgnostic plot
The percentages of read pairs in FR, RF, and TANDEM orientations.


Accessible chromatin region of cerebellum

Use these accessible chromatin regions to analyze or download

TF footprint of cerebellum


Peak annotation visualization of cerebellum

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