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SRR12699340 Sample ID 2234
| Paper identifier | Schick2021acute |
| SRP accession | SRP255443 |
| GEO accession | GSE148175 |
| Samples | SRR12699340 |
| QC score | 1 |
| Replicate | 1 |
| Protocol | PRO-seq |
| Library prep | not noted in GEO or publication |
| 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 | |
| Stranded gene read counts | TXT file | |
| Unstranded bidirectional read counts | TXT file | |
| Tfit bidirectional regions | BED file | |
| dREG bidirectional regions | BED file | |
| All data files | ZIP archive | |
| Organism | H. sapiens |
| Sample type | cell line |
| Cell type | HAP1 |
| Clone/Individual | |
| Strain | |
| Genotype | Smarca4 -/-; Smarca2 dTAG-inducible degron |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| vehicle | DMSO | -3 hr | 0 hr | 3 hr |
| Pipeline info and software versions | |
| Sample notes | Cites Jaeger2020selective, so might be random primed library, and might have Drosophila spike-ins |
| Analysis notes | Previously in DB until 4/19/2021 as Schick2020unpublished - scripts have been changed, but all previous outerr and log files reflect previous id |
| Sample QC score | 1 |
| Sample NRO score | 2 |
| Raw read length | 12 |
| Read depth after trimming | 56,737,168 |
| Duplication proportion | 0.28956 |
| Proportion reads mapped | 0.9807 |
| Exon/intron ratio | 3.1815 |
| Unique read proportion | 0.88896 |
| Total # Tfit bidirectionals | 29750 |
| # Promoter Tfit bidirectionals | 16852 |
| # Intronic Tfit bidirectionals | 9322 |
| # Intergenic Tfit bidirectionals | 4273 |
| Total # dREG bidirectionals | 18970 |
| # Promoter dREG bidirectionals | 7450 |
| # Intronic dREG bidirectionals | 7544 |
| # Intergenic dREG bidirectionals | 2937 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |