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SRR1560537 Sample ID 939
| Paper identifier | Hah2015inflammation |
| SRP | SRP045840 |
| Samples | SRR1560537 |
| QC score | 1 |
| Replicate | 1 |
| Protocol | GRO-seq |
| Library prep | ligation |
| Spike-in | None |
| Single/Paired end | single |
| Timecourse | False |
| Control/Experimental | experimental |
| Outlier | No |
| Unusable | No |
| TDF visualization file | TDF file | 145 Mb |
| Stranded gene read counts | TXT file | 918 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 3 Mb |
| dREG bidirectional regions | BED file | 1 Mb |
| 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 | 1 |
| Sample NRO score | 1 |
| Raw read length | 50 |
| Read depth after trimming | 63,099,587 |
| Duplication proportion | 0.46033 |
| Proportion reads mapped | 0.7039 |
| Exon/intron ratio | 2.43658 |
| Unique read proportion | 0.66275 |
| Total # Tfit bidirectionals | 31053 |
| # Promoter Tfit bidirectionals | 10958 |
| # Intronic Tfit bidirectionals | 9795 |
| # Intergenic Tfit bidirectionals | 8587 |
| Total # dREG bidirectionals | 30037 |
| # Promoter dREG bidirectionals | 7220 |
| # Intronic dREG bidirectionals | 12350 |
| # Intergenic dREG bidirectionals | 8551 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |