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SRR7550987 Sample ID 1909
| Paper identifier | Nair2019phase |
| SRP accession | SRP154849 |
| GEO accession | GSE117493 |
| Samples | SRR7550987 |
| 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 | 2,5-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 | 1 |
| Sample NRO score | 1 |
| Raw read length | 100 |
| Read depth after trimming | 50,117,111 |
| Duplication proportion | 0.43041 |
| Proportion reads mapped | 0.8015 |
| Exon/intron ratio | 2.23114 |
| Unique read proportion | 0.66283 |
| Total # Tfit bidirectionals | 34588 |
| # Promoter Tfit bidirectionals | 9272 |
| # Intronic Tfit bidirectionals | 16526 |
| # Intergenic Tfit bidirectionals | 7553 |
| Total # dREG bidirectionals | 20887 |
| # Promoter dREG bidirectionals | 6814 |
| # Intronic dREG bidirectionals | 9061 |
| # Intergenic dREG bidirectionals | 4818 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |