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SRR1560538 Sample ID 940
| Paper identifier | Hah2015inflammation |
| SRP accession | SRP045840 |
| GEO accession | GSE60857 |
| Samples | SRR1560538 |
| 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 | experimental |
| Wildtype & Untreated? | False |
| Outlier | No |
| Unusable | No |
| TDF visualization file | TDF file | 42 Mb |
| Stranded gene read counts | TXT file | 903 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 1 Mb |
| dREG bidirectional regions | BED file | 414 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 | lipopolysaccharide (100 ng/mL) | -180 min | 0 min | 3 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 | 51 |
| Read depth after trimming | 14,506,337 |
| Duplication proportion | 0.45073 |
| Proportion reads mapped | 0.5952 |
| Exon/intron ratio | 1.61374 |
| Unique read proportion | 0.55314 |
| Total # Tfit bidirectionals | 14761 |
| # Promoter Tfit bidirectionals | 3456 |
| # Intronic Tfit bidirectionals | 6403 |
| # Intergenic Tfit bidirectionals | 3780 |
| Total # dREG bidirectionals | 9597 |
| # Promoter dREG bidirectionals | 2965 |
| # Intronic dREG bidirectionals | 3826 |
| # Intergenic dREG bidirectionals | 2364 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |