| Sample ID: | Sample_0582 |
| Biosample name: | GIST-T1 |
| Biosample type: | Cell Line |
| Tissue type: | Gastrointestinal stromal |
| Cancer type: | Gastrointestinal stromal tumor |
| Region number: | 41720 |
| Length: | 22517.875 kb |
| GEO/SRA ID: | SRR6048583 |
| Mean insert size: | 180.255 |
| Standard deviation: | 130.632 |
| TSS enrichment score: | 43.65600 |
| FRiP: | 0.24276 |
| 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 |
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