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SRR6837045 Sample ID 819
| Paper identifier | Fonseca2019diverse |
| SRP accession | SRP135713 |
| GEO accession | GSE111855 |
| Samples | SRR6837045 |
| QC score | 4 |
| Replicate | 1 |
| 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 | 30 Mb |
| Stranded gene read counts | TXT file | 902 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 803 Kb |
| dREG bidirectional regions | BED file | 309 Kb |
| All data files | ZIP archive | |
| Organism | M. musculus |
| Sample type | primary cell |
| Cell type | peritoneal macrophage |
| Clone/Individual | |
| Strain | C57Bl/6EiJ |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | Kdo2-Lipid A (100 ng/mL) | -1 hr | 0 hr | 1 hr |
| Pipeline info and software versions | |
| Sample notes | |
| Analysis notes | Ran qc redo nextflow |
| Sample QC score | 4 |
| Sample NRO score | 1 |
| Raw read length | 50 |
| Read depth after trimming | 9,859,704 |
| Duplication proportion | 0.40205 |
| Proportion reads mapped | 0.636 |
| Exon/intron ratio | 1.61145 |
| Unique read proportion | 0.56311 |
| Total # Tfit bidirectionals | 9492 |
| # Promoter Tfit bidirectionals | 3461 |
| # Intronic Tfit bidirectionals | 3468 |
| # Intergenic Tfit bidirectionals | 1740 |
| Total # dREG bidirectionals | 7192 |
| # Promoter dREG bidirectionals | 3371 |
| # Intronic dREG bidirectionals | 2058 |
| # Intergenic dREG bidirectionals | 1222 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |