Sample overview

Sample ID: Sample_1011
Biosample name: HEK293T
Biosample type: Cell Line
Tissue type: Kidney
Cancer type: Normal
Region number: 785
Length: 497.383 kb
GEO/SRA ID: SRR5627154
Mean insert size: 312.054
Standard deviation: 215.416
TSS enrichment score: 2.70291
FRiP: 0.01052
Diasgnostic plot
The percentages of read pairs in FR, RF, and TANDEM orientations.


Accessible chromatin region of HEK293T

Use these accessible chromatin regions to analyze or download

TF footprint of HEK293T


Peak annotation visualization of HEK293T

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