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SRR1806578 Sample ID 117
| Paper identifier | Andrade2015dna |
| SRP accession | SRP055100 |
| GEO accession | GSE65985 |
| Samples | SRR1806578 |
| QC score | 3 |
| Replicate | 1 |
| Protocol | Bru-seq |
| Library prep | ligation |
| Spike-in | None |
| Single/Paired end | single |
| Raw strandedness | reverse |
| Reverse complemented? | True |
| Mapped strandedness | forward |
| Timecourse | True |
| Control/Experimental | experimental |
| Wildtype & Untreated? | False |
| Outlier | No |
| Unusable | No |
| TDF visualization file | TDF file | 61 Mb |
| Stranded gene read counts | TXT file | 1 Mb |
| Unstranded bidirectional read counts | TXT file | 21 Mb |
| Tfit bidirectional regions | BED file | 525 Kb |
| dREG bidirectional regions | BED file | 197 Kb |
| All data files | ZIP archive | |
| Organism | H. sapiens |
| Sample type | primary cell |
| Cell type | skin fibroblast |
| Clone/Individual | GM00739 |
| Strain | |
| Genotype | Csb CS1AN mut |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | bromouridine (2 mM) | -30 min | 0 min | 30 min |
| treatment | ultraviolet C (1 J/m^2/s) | -1810 s | -1800 s | 10 s |
| Pipeline info and software versions | |
| Sample notes | BrU-seq; Cockayne syndrome fibroblasts (GM00739) |
| Analysis notes |
| Sample QC score | 3 |
| Sample NRO score | 2 |
| Raw read length | 52 |
| Read depth after trimming | 36,966,941 |
| Duplication proportion | 0.74922 |
| Proportion reads mapped | 0.973 |
| Exon/intron ratio | 3.35697 |
| Unique read proportion | 0.30798 |
| Total # Tfit bidirectionals | 6020 |
| # Promoter Tfit bidirectionals | 1634 |
| # Intronic Tfit bidirectionals | 2945 |
| # Intergenic Tfit bidirectionals | 518 |
| Total # dREG bidirectionals | 4561 |
| # Promoter dREG bidirectionals | 1633 |
| # Intronic dREG bidirectionals | 2009 |
| # Intergenic dREG bidirectionals | 544 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |