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SRR6347628 Sample ID 1905
| Paper identifier | Nair2019phase |
| SRP accession | SRP108498 |
| GEO accession | GSE99539 |
| Samples | SRR6347628 |
| QC score | 1 |
| Replicate | 1 |
| Protocol | GRO-seq |
| Library prep | circularization |
| Spike-in | None |
| Single/Paired end | single |
| Raw strandedness | forward |
| Reverse complemented? | False |
| Mapped strandedness | forward |
| Timecourse | False |
| Control/Experimental | experimental |
| Wildtype & Untreated? | False |
| 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 | MCF7 |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | 1,6-hexanediol (8.5 percent) | -35 min | -30 min | 5 min |
| treatment | 17-beta-estradiol (100 nM) | -30 min | 0 min | 30 min |
| Pipeline info and software versions | |
| Sample notes | Methods unclear in spots - treatments may not be accurate |
| Analysis notes | Ran qc redo nextflow |
| Sample QC score | 1 |
| Sample NRO score | 2 |
| Raw read length | 75 |
| Read depth after trimming | 25,911,237 |
| Duplication proportion | 0.42706 |
| Proportion reads mapped | 0.8684 |
| Exon/intron ratio | 3.44284 |
| Unique read proportion | 0.622 |
| Total # Tfit bidirectionals | 32597 |
| # Promoter Tfit bidirectionals | 13815 |
| # Intronic Tfit bidirectionals | 13369 |
| # Intergenic Tfit bidirectionals | 5211 |
| Total # dREG bidirectionals | 21769 |
| # Promoter dREG bidirectionals | 8568 |
| # Intronic dREG bidirectionals | 9020 |
| # Intergenic dREG bidirectionals | 4311 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |