Sample ID: | Sample_0072 |
Biosample name: | Forebrain neurons |
Biosample type: | Induced pluripotent stem cell line |
Tissue type: | Forebrain |
Cancer type: | Normal |
Region number: | 19405 |
Length: | 10967.276 kb |
GEO/SRA ID: | SRR5417036 |
Mean insert size: | 210.347 |
Standard deviation: | 200.393 |
TSS enrichment score: | 7.01608 |
FRiP: | 0.07831 |
Diasgnostic plot | |
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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). |
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 |