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SRR7550989 Sample ID 1911
| Paper identifier | Nair2019phase |
| SRP accession | SRP154849 |
| GEO accession | GSE117493 |
| Samples | SRR7550989 |
| QC score | 2 |
| 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 percent) | -35 min | -30 min | 5 min |
| treatment | TNF-alpha (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 | 2 |
| Sample NRO score | 2 |
| Raw read length | 100 |
| Read depth after trimming | 51,759,246 |
| Duplication proportion | 0.62945 |
| Proportion reads mapped | 0.7158 |
| Exon/intron ratio | 3.55676 |
| Unique read proportion | 0.46393 |
| Total # Tfit bidirectionals | 45547 |
| # Promoter Tfit bidirectionals | 14217 |
| # Intronic Tfit bidirectionals | 20563 |
| # Intergenic Tfit bidirectionals | 8405 |
| Total # dREG bidirectionals | 24602 |
| # Promoter dREG bidirectionals | 8128 |
| # Intronic dREG bidirectionals | 10695 |
| # Intergenic dREG bidirectionals | 5746 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |