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SRR10486674 Sample ID 1933
| Paper identifier | Nguyen2020dichotomous |
| SRP accession | SRP230423 |
| GEO accession | GSE140573 |
| Samples | SRR10486674 |
| QC score | 2 |
| 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 | 52 Mb |
| Stranded gene read counts | TXT file | 913 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| dREG bidirectional regions | BED file | 480 Kb |
| All data files | ZIP archive | |
| Organism | M. musculus |
| Sample type | primary cell |
| Cell type | bone marrow derived macrophage |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | lipopolysaccharide (5 ng/mL) | -4 hr | 0 hr | 4 hr |
| Pipeline info and software versions | |
| Sample notes | |
| Analysis notes | Poor quality libraries, many are mostly poly-A or unknown contamination |
| Sample QC score | 2 |
| Sample NRO score | 1 |
| Raw read length | 50 |
| Read depth after trimming | 61,657,098 |
| Duplication proportion | 0.62412 |
| Proportion reads mapped | 0.2907 |
| Exon/intron ratio | 2.12147 |
| Unique read proportion | 0.41952 |
| Total # Tfit bidirectionals | None |
| # Promoter Tfit bidirectionals | None |
| # Intronic Tfit bidirectionals | None |
| # Intergenic Tfit bidirectionals | None |
| Total # dREG bidirectionals | 11158 |
| # Promoter dREG bidirectionals | 4284 |
| # Intronic dREG bidirectionals | 3514 |
| # Intergenic dREG bidirectionals | 2546 |
| Part of Tfit master merge? | False |
| Part of dREG master merge? | False |