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SRR1560534 Sample ID 936
| Paper identifier | Hah2015inflammation |
| SRP accession | SRP045840 |
| GEO accession | GSE60857 |
| Samples | SRR1560534 |
| 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 | 48 Mb |
| Stranded gene read counts | TXT file | 909 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 2 Mb |
| dREG bidirectional regions | BED file | 527 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) | -20 min | 0 min | 20 min |
| 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 | 15,300,775 |
| Duplication proportion | 0.43458 |
| Proportion reads mapped | 0.6412 |
| Exon/intron ratio | 1.6004 |
| Unique read proportion | 0.59521 |
| Total # Tfit bidirectionals | 20488 |
| # Promoter Tfit bidirectionals | 4316 |
| # Intronic Tfit bidirectionals | 9612 |
| # Intergenic Tfit bidirectionals | 4458 |
| Total # dREG bidirectionals | 12228 |
| # Promoter dREG bidirectionals | 3907 |
| # Intronic dREG bidirectionals | 4682 |
| # Intergenic dREG bidirectionals | 2950 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |