Explore DBNascent | browse or search sample metadata
Search
Advanced Search
All Samples
Samples By Dataset
Sample Details
SRZ12179474 Sample ID 2889
| Paper identifier | Zhu2021calcium |
| SRP accession | SRP270993 |
| GEO accession | GSE154051 |
| Samples | SRR12179474 |
| SRR12179475 |
| QC score | 4 |
| Replicate | 1 |
| Protocol | GRO-seq |
| Library prep | not noted in GEO or publication |
| 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 | 29 Mb |
| Stranded gene read counts | TXT file | 902 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 484 Kb |
| dREG bidirectional regions | BED file | 204 Kb |
| All data files | ZIP archive | |
| Organism | M. musculus |
| Sample type | cell line |
| Cell type | ECOMG |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | A23187 (5 microM) | -4 hr | 0 hr | 4 hr |
| treatment | neutrophil differentiation protocol | None | None | None |
| Pipeline info and software versions | |
| Sample notes | No library prep specified, no polyA tails; no replicate info, assume tech reps |
| Analysis notes |
| Sample QC score | 4 |
| Sample NRO score | 2 |
| Raw read length | 75 |
| Read depth after trimming | 32,165,029 |
| Duplication proportion | 0.82604 |
| Proportion reads mapped | 0.6861 |
| Exon/intron ratio | 3.58759 |
| Unique read proportion | 0.19062 |
| Total # Tfit bidirectionals | 5706 |
| # Promoter Tfit bidirectionals | 2082 |
| # Intronic Tfit bidirectionals | 2122 |
| # Intergenic Tfit bidirectionals | 382 |
| Total # dREG bidirectionals | 4745 |
| # Promoter dREG bidirectionals | 1941 |
| # Intronic dREG bidirectionals | 1411 |
| # Intergenic dREG bidirectionals | 942 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |