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SRR3657419 Sample ID 410
| Paper identifier | Busslinger2017cohesin |
| SRP | SRP067744 |
| Samples | SRR3657419 |
| QC score | 5 |
| Replicate | 1 |
| Protocol | GRO-seq |
| Library prep | ligation |
| Spike-in | None |
| Single/Paired end | single |
| Timecourse | True |
| Control/Experimental | experimental |
| Outlier | No |
| Unusable | No |
| TDF visualization file | TDF file | 16 Mb |
| Stranded gene read counts | TXT file | 900 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 1 Mb |
| dREG bidirectional regions | BED file | 592 Kb |
| All data files | ZIP archive | |
| Organism | M. musculus |
| Sample type | cell line |
| Cell type | MEF |
| Clone/Individual | |
| Strain | C57BL/6 |
| Genotype | Ctcf fl/fl; WapI fl/fl |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | DRB (100 microM) | -210 min | 0 min | 210 min |
| treatment | adeno-Cre virus (1 microL/million cells) | -244 hr | -240 hr | 4 hr |
| Pipeline info and software versions | |
| Sample notes | |
| Analysis notes | Sparse due to high adapter contamination; Ran qc redo nextflow |
| Sample QC score | 5 |
| Sample NRO score | 3 |
| Raw read length | 18 |
| Read depth after trimming | 3,587,015 |
| Duplication proportion | 0.55208 |
| Proportion reads mapped | 0.7964 |
| Exon/intron ratio | 6.38636 |
| Unique read proportion | 0.24772 |
| Total # Tfit bidirectionals | 16663 |
| # Promoter Tfit bidirectionals | 5417 |
| # Intronic Tfit bidirectionals | 7546 |
| # Intergenic Tfit bidirectionals | 2817 |
| Total # dREG bidirectionals | 13788 |
| # Promoter dREG bidirectionals | 5927 |
| # Intronic dREG bidirectionals | 5381 |
| # Intergenic dREG bidirectionals | 1840 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |