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SRR065241 Sample ID 687
| Paper identifier | Escoubet-lozach2011mechanisms |
| SRP accession | SRP003475 |
| GEO accession | GSE23619 |
| Samples | SRR065241 |
| QC score | 4 |
| Replicate | 1 |
| Protocol | GRO-seq |
| Library prep | circularization |
| 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 | 25 Mb |
| Stranded gene read counts | TXT file | 903 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 839 Kb |
| dREG bidirectional regions | BED file | 297 Kb |
| All data files | ZIP archive | |
| Organism | M. musculus |
| Sample type | primary cell |
| Cell type | peritoneal macrophage |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | Kdo2-Lipid A | -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 | 34 |
| Read depth after trimming | 8,225,896 |
| Duplication proportion | 0.5745 |
| Proportion reads mapped | 0.7059 |
| Exon/intron ratio | 2.82534 |
| Unique read proportion | 0.33871 |
| Total # Tfit bidirectionals | 9894 |
| # Promoter Tfit bidirectionals | 3950 |
| # Intronic Tfit bidirectionals | 3416 |
| # Intergenic Tfit bidirectionals | 1511 |
| Total # dREG bidirectionals | 6907 |
| # Promoter dREG bidirectionals | 3424 |
| # Intronic dREG bidirectionals | 1951 |
| # Intergenic dREG bidirectionals | 891 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |