Explore DBNascent | browse or search sample metadata
Search
Advanced Search
All Samples
Samples By Dataset
Sample Details
SRR3728891 Sample ID 1806
| Paper identifier | Malinen2017crosstalk |
| SRP accession | SRP077580 |
| GEO accession | GSE83860 |
| Samples | SRR3728891 |
| QC score | 3 |
| Replicate | 2 |
| 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 | control |
| Wildtype & Untreated? | True |
| 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 | LNCaP |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| vehicle | DMSO | -2 hr | 0 hr | 2 hr |
| Pipeline info and software versions | |
| Sample notes | |
| Analysis notes | Ran qc redo nextflow |
| Sample QC score | 3 |
| Sample NRO score | 1 |
| Raw read length | 51 |
| Read depth after trimming | 13,321,378 |
| Duplication proportion | 0.4337 |
| Proportion reads mapped | 0.9039 |
| Exon/intron ratio | 2.53018 |
| Unique read proportion | 0.57236 |
| Total # Tfit bidirectionals | 16939 |
| # Promoter Tfit bidirectionals | 7720 |
| # Intronic Tfit bidirectionals | 6508 |
| # Intergenic Tfit bidirectionals | 2538 |
| Total # dREG bidirectionals | 10961 |
| # Promoter dREG bidirectionals | 6074 |
| # Intronic dREG bidirectionals | 3514 |
| # Intergenic dREG bidirectionals | 1695 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |