Explore DBNascent | browse or search sample metadata
Search
Advanced Search
All Samples
Samples By Dataset
Sample Details
SRR1806573 Sample ID 112
| Paper identifier | Andrade2015dna |
| SRP accession | SRP055100 |
| GEO accession | GSE65985 |
| Samples | SRR1806573 |
| QC score | 3 |
| Replicate | 2 |
| 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 | 101 Mb |
| Stranded gene read counts | TXT file | 1 Mb |
| Unstranded bidirectional read counts | TXT file | 21 Mb |
| Tfit bidirectional regions | BED file | 365 Kb |
| dREG bidirectional regions | BED file | 253 Kb |
| All data files | ZIP archive | |
| Organism | H. sapiens |
| Sample type | primary cell |
| Cell type | skin fibroblast |
| Clone/Individual | GM14867 |
| Strain | |
| Genotype | Xpc XP67TMA 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) | -21610 s | -21600 s | 10 s |
| Pipeline info and software versions | |
| Sample notes | BrU-seq; Xeroderma pigmentosum skin fibroblast (GM14867) |
| Analysis notes |
| Sample QC score | 3 |
| Sample NRO score | 1 |
| Raw read length | 52 |
| Read depth after trimming | 49,720,206 |
| Duplication proportion | 0.68183 |
| Proportion reads mapped | 0.9701 |
| Exon/intron ratio | 2.4685 |
| Unique read proportion | 0.46115 |
| Total # Tfit bidirectionals | 4172 |
| # Promoter Tfit bidirectionals | 1162 |
| # Intronic Tfit bidirectionals | 1987 |
| # Intergenic Tfit bidirectionals | 405 |
| Total # dREG bidirectionals | 5852 |
| # Promoter dREG bidirectionals | 1818 |
| # Intronic dREG bidirectionals | 2897 |
| # Intergenic dREG bidirectionals | 736 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |