Sample overview

Sample ID: Sample_1316
Biosample name: GM12878
Biosample type: Cell Line
Tissue type: Blood
Cancer type: Normal
Region number: 386
Length: 178.519 kb
GEO/SRA ID: SRR891274
Mean insert size: 280.474
Standard deviation: 230.844
TSS enrichment score: 2.04448
FRiP: 0.00195
Diasgnostic plot
The percentages of read pairs in FR, RF, and TANDEM orientations.


Accessible chromatin region of GM12878

Use these accessible chromatin regions to analyze or download

TF footprint of GM12878


Peak annotation visualization of GM12878

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Plot B

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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