Sample overview

Sample ID: Sample_0008
Biosample name: iMeLCs induced from primed UCLA1 hESCs
Biosample type: Stem Cell
Tissue type: Embryo
Cancer type: Normal
Region number: 65001
Length: 34707.324 kb
GEO/SRA ID: SRR7942729
Mean insert size: 156.952
Standard deviation: 108.292
TSS enrichment score: 27.89620
FRiP: 0.17247
Diasgnostic plot
The percentages of read pairs in FR, RF, and TANDEM orientations.


Accessible chromatin region of iMeLCs induced from primed UCLA1 hESCs

Use these accessible chromatin regions to analyze or download

TF footprint of iMeLCs induced from primed UCLA1 hESCs


Peak annotation visualization of iMeLCs induced from primed UCLA1 hESCs

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