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SRR1275489 Sample ID 2417
| Paper identifier | Tan2016stress |
| SRP accession | SRP041793 |
| GEO accession | GSE57430 |
| Samples | SRR1275489 |
| QC score | 4 |
| Replicate | 1 |
| Protocol | GRO-seq |
| Library prep | ligation |
| 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 | 11 Mb |
| Stranded gene read counts | TXT file | 1 Mb |
| Unstranded bidirectional read counts | TXT file | 21 Mb |
| Tfit bidirectional regions | BED file | 29 Kb |
| dREG bidirectional regions | BED file | 19 Kb |
| All data files | ZIP archive | |
| Organism | H. sapiens |
| Sample type | cell line |
| Cell type | A375 |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| vehicle | DMSO | -2 day | 0 day | 2 day |
| Pipeline info and software versions | |
| Sample notes | |
| Analysis notes | Most sparse due to low complexity, but probably usable; Ran qc redo nextflow |
| Sample QC score | 4 |
| Sample NRO score | 1 |
| Raw read length | 40 |
| Read depth after trimming | 11,048,933 |
| Duplication proportion | 0.94838 |
| Proportion reads mapped | 0.9587 |
| Exon/intron ratio | 0.72549 |
| Unique read proportion | 0.05299 |
| Total # Tfit bidirectionals | 330 |
| # Promoter Tfit bidirectionals | 142 |
| # Intronic Tfit bidirectionals | 89 |
| # Intergenic Tfit bidirectionals | 70 |
| Total # dREG bidirectionals | 426 |
| # Promoter dREG bidirectionals | 111 |
| # Intronic dREG bidirectionals | 69 |
| # Intergenic dREG bidirectionals | 239 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |