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SRR3407140 Sample ID 555
| Paper identifier | Daniel2018nuclear |
| SRP accession | SRP073648 |
| GEO accession | GSE110464 |
| Samples | SRR3407140 |
| QC score | 3 |
| Replicate | 2 |
| 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 | 28 Mb |
| Stranded gene read counts | TXT file | 905 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 533 Kb |
| dREG bidirectional regions | BED file | 152 Kb |
| All data files | ZIP archive | |
| Organism | M. musculus |
| Sample type | primary cell |
| Cell type | bone marrow derived macrophage |
| Clone/Individual | |
| Strain | C57BL/6 |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | interleukin-4 (20 ng/microL) | -25 hr | -1 hr | 1 day |
| vehicle | DMSO/ethanol | -1 hr | 0 hr | 1 hr |
| Pipeline info and software versions | |
| Sample notes | |
| Analysis notes | Ran qc redo nextflow |
| Sample QC score | 3 |
| Sample NRO score | 2 |
| Raw read length | 30 |
| Read depth after trimming | 20,768,534 |
| Duplication proportion | 0.6509 |
| Proportion reads mapped | 0.4856 |
| Exon/intron ratio | 3.5473 |
| Unique read proportion | 0.35931 |
| Total # Tfit bidirectionals | 6278 |
| # Promoter Tfit bidirectionals | 1950 |
| # Intronic Tfit bidirectionals | 2531 |
| # Intergenic Tfit bidirectionals | 540 |
| Total # dREG bidirectionals | 3544 |
| # Promoter dREG bidirectionals | 1747 |
| # Intronic dREG bidirectionals | 913 |
| # Intergenic dREG bidirectionals | 363 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |