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SRR930686 Sample ID 1150
| Paper identifier | Kaikkonen2013remodeling |
| SRP accession | SRP026695 |
| GEO accession | GSE48759 |
| Samples | SRR930686 |
| QC score | 1 |
| 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 | False |
| Control/Experimental | experimental |
| Wildtype & Untreated? | False |
| Outlier | No |
| Unusable | No |
| TDF visualization file | TDF file | 73 Mb |
| Stranded gene read counts | TXT file | 916 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 2 Mb |
| dREG bidirectional regions | BED file | 834 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 | IBET151 (1 microM) | -2 hr | 0 hr | 2 hr |
| treatment | serum starvation (0.5% FBS) | -15 hr | 0 hr | 15 hr |
| Pipeline info and software versions | |
| Sample notes | Replicate information unclear |
| Analysis notes | Ran qc redo nextflow |
| Sample QC score | 1 |
| Sample NRO score | 2 |
| Raw read length | 49 |
| Read depth after trimming | 27,757,426 |
| Duplication proportion | 0.49563 |
| Proportion reads mapped | 0.7943 |
| Exon/intron ratio | 3.0303 |
| Unique read proportion | 0.6115 |
| Total # Tfit bidirectionals | 20794 |
| # Promoter Tfit bidirectionals | 7019 |
| # Intronic Tfit bidirectionals | 7430 |
| # Intergenic Tfit bidirectionals | 4538 |
| Total # dREG bidirectionals | 19267 |
| # Promoter dREG bidirectionals | 6213 |
| # Intronic dREG bidirectionals | 7071 |
| # Intergenic dREG bidirectionals | 4481 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |