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SRZ930653 Sample ID 1160
| Paper identifier | Kaikkonen2013remodeling |
| SRP accession | SRP026695 |
| GEO accession | GSE48759 |
| Samples | SRR930653 |
| SRR930654 |
| QC score | 4 |
| Replicate | 1 |
| Protocol | GRO-seq |
| Library prep | circularization |
| Spike-in | None |
| Single/Paired end | single |
| Raw strandedness | forward |
| Reverse complemented? | False |
| Mapped strandedness | forward |
| Timecourse | True |
| Control/Experimental | control |
| Wildtype & Untreated? | False |
| Outlier | No |
| Unusable | No |
| TDF visualization file | TDF file | 28 Mb |
| Stranded gene read counts | TXT file | 904 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 927 Kb |
| dREG bidirectional regions | BED file | 284 Kb |
| All data files | ZIP archive | |
| Organism | M. musculus |
| Sample type | primary cell |
| Cell type | peritoneal macrophage |
| Clone/Individual | |
| Strain | C57BL/6 |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | serum starvation (0.5% FBS) | -14 hr | 0 hr | 14 hr |
| Pipeline info and software versions | |
| Sample notes | Replicate information unclear |
| Analysis notes | Ran qc redo nextflow |
| Sample QC score | 4 |
| Sample NRO score | 1 |
| Raw read length | 34 |
| Read depth after trimming | 6,528,653 |
| Duplication proportion | 0.28742 |
| Proportion reads mapped | 0.7693 |
| Exon/intron ratio | 2.88031 |
| Unique read proportion | 0.67407 |
| Total # Tfit bidirectionals | 10976 |
| # Promoter Tfit bidirectionals | 4776 |
| # Intronic Tfit bidirectionals | 3594 |
| # Intergenic Tfit bidirectionals | 1461 |
| Total # dREG bidirectionals | 6595 |
| # Promoter dREG bidirectionals | 3404 |
| # Intronic dREG bidirectionals | 1615 |
| # Intergenic dREG bidirectionals | 900 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |