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SRZ8283309 Sample ID 2751
| Paper identifier | Yu2020negative |
| SRP accession | SRP172558 |
| GEO accession | GSE123370 |
| Samples | SRR8283309 |
| SRR8283310 |
| QC score | 2 |
| Replicate | 1 |
| Protocol | PRO-seq |
| Library prep | ligation |
| Spike-in | None |
| Single/Paired end | paired |
| Raw strandedness | read1 forward |
| Reverse complemented? | True |
| Mapped strandedness | read1 forward |
| Timecourse | False |
| Control/Experimental | experimental |
| Wildtype & Untreated? | False |
| Outlier | No |
| Unusable | No |
| TDF visualization file | TDF file | 60 Mb |
| Stranded gene read counts | TXT file | 914 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 2 Mb |
| dREG bidirectional regions | BED file | 765 Kb |
| All data files | ZIP archive | |
| Organism | M. musculus |
| Sample type | primary cell |
| Cell type | bone marrow derived macrophage |
| Clone/Individual | |
| Strain | |
| Genotype | NelfB -/- |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | lipopolysaccharide (10 ng/mL) | -30 min | 0 min | 30 min |
| Pipeline info and software versions | |
| Sample notes | Replicates not explicitly stated |
| Analysis notes |
| Sample QC score | 2 |
| Sample NRO score | 2 |
| Raw read length | 150 |
| Read depth after trimming | 26,239,388 |
| Duplication proportion | 0.46833 |
| Proportion reads mapped | 0.7302 |
| Exon/intron ratio | 4.57291 |
| Unique read proportion | 0.49093 |
| Total # Tfit bidirectionals | 23225 |
| # Promoter Tfit bidirectionals | 8324 |
| # Intronic Tfit bidirectionals | 8009 |
| # Intergenic Tfit bidirectionals | 4062 |
| Total # dREG bidirectionals | 17610 |
| # Promoter dREG bidirectionals | 5343 |
| # Intronic dREG bidirectionals | 6148 |
| # Intergenic dREG bidirectionals | 3531 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |