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SRR6347629 Sample ID 1906
| Paper identifier | Nair2019phase |
| SRP accession | SRP108498 |
| GEO accession | GSE99539 |
| Samples | SRR6347629 |
| 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 | 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 | MCF7 |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| vehicle | ethanol | -30 min | 0 min | 30 min |
| treatment | 2,5-hexanediol (8.5 percent) | -35 min | -30 min | 5 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 | 1 |
| Raw read length | 75 |
| Read depth after trimming | 27,142,984 |
| Duplication proportion | 0.39924 |
| Proportion reads mapped | 0.8838 |
| Exon/intron ratio | 2.75157 |
| Unique read proportion | 0.64281 |
| Total # Tfit bidirectionals | 24380 |
| # Promoter Tfit bidirectionals | 10099 |
| # Intronic Tfit bidirectionals | 10163 |
| # Intergenic Tfit bidirectionals | 3728 |
| Total # dREG bidirectionals | 17580 |
| # Promoter dREG bidirectionals | 8081 |
| # Intronic dREG bidirectionals | 6779 |
| # Intergenic dREG bidirectionals | 2939 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |