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SRR4842302 Sample ID 2625
| Paper identifier | Wang2017cell |
| SRP accession | SRP092486 |
| GEO accession | GSE89464 |
| Samples | SRR4842302 |
| 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 | 113 Mb |
| Stranded gene read counts | TXT file | 928 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 2 Mb |
| dREG bidirectional regions | BED file | 1 Mb |
| All data files | ZIP archive | |
| Organism | M. musculus |
| Sample type | primary cell |
| Cell type | splenic B cell |
| Clone/Individual | |
| Strain | |
| Genotype | Fucci-EGFP+ (stable) |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | cell sorting EGFP+ | -210 min | -150 min | 1 hr |
| treatment | cell sorting EGFP- | -60 min | 0 min | 1 hr |
| treatment | nocodazole (100 ng/mL) | -570 min | -210 min | 6 hr |
| Pipeline info and software versions | |
| Sample notes | Sorted for early G1; arbitrarily called sorting time 1 hr; mentions DNA-seq but no indication of available dataset |
| Analysis notes | Ran qc redo nextflow |
| Sample QC score | 4 |
| Sample NRO score | 1 |
| Raw read length | 50 |
| Read depth after trimming | 185,457,316 |
| Duplication proportion | 0.85364 |
| Proportion reads mapped | 0.7473 |
| Exon/intron ratio | 2.19055 |
| Unique read proportion | 0.31096 |
| Total # Tfit bidirectionals | 29007 |
| # Promoter Tfit bidirectionals | 9095 |
| # Intronic Tfit bidirectionals | 10833 |
| # Intergenic Tfit bidirectionals | 6667 |
| Total # dREG bidirectionals | 29941 |
| # Promoter dREG bidirectionals | 6750 |
| # Intronic dREG bidirectionals | 13327 |
| # Intergenic dREG bidirectionals | 7857 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |