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SRZ6290523 Sample ID 2117
| Paper identifier | Rao2017cohesin |
| SRP accession | SRP124968 |
| GEO accession | GSE106886 |
| Samples | SRR6290523 |
| SRR6290524 | |
| SRR6290525 | |
| SRR6290526 |
| QC score | 1 |
| Replicate | 4 |
| Protocol | PRO-seq |
| Library prep | ligation |
| Spike-in | D. melanogaster |
| Single/Paired end | paired |
| Raw strandedness | read1 reverse |
| Reverse complemented? | False |
| Mapped strandedness | read1 reverse |
| Timecourse | False |
| Control/Experimental | control |
| Wildtype & Untreated? | True |
| Outlier | No |
| Unusable | No |
| TDF visualization file | TDF file | |
| Stranded gene read counts | TXT file | |
| Unstranded bidirectional read counts | TXT file | |
| Tfit bidirectional regions | BED file | |
| dREG bidirectional regions | BED file | |
| All data files | ZIP archive | |
| Organism | H. sapiens |
| Sample type | cell line |
| Cell type | HCT116 |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| vehicle | growth media | -6 hr | 0 hr | 6 hr |
| Pipeline info and software versions | |
| Sample notes | Library prep not noted in paper, but cites Engreitz2016local |
| Analysis notes |
| Sample QC score | 1 |
| Sample NRO score | 2 |
| Raw read length | 30 |
| Read depth after trimming | 39,578,023 |
| Duplication proportion | 0.07564 |
| Proportion reads mapped | 0.9157 |
| Exon/intron ratio | 4.05724 |
| Unique read proportion | 0.8685 |
| Total # Tfit bidirectionals | 31226 |
| # Promoter Tfit bidirectionals | 14539 |
| # Intronic Tfit bidirectionals | 10975 |
| # Intergenic Tfit bidirectionals | 6531 |
| Total # dREG bidirectionals | 26480 |
| # Promoter dREG bidirectionals | 7383 |
| # Intronic dREG bidirectionals | 11545 |
| # Intergenic dREG bidirectionals | 5949 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |