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SRZ1951428 Sample ID 950
| Paper identifier | Heinaniemi2016transcription |
| SRP accession | SRP056832 |
| GEO accession | GSE67540 |
| Samples | SRR1951428 |
| SRR1951429 |
| QC score | 1 |
| 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 | True |
| Control/Experimental | control |
| Wildtype & Untreated? | True |
| 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 | REH |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| no treatment | None | None | None |
| Pipeline info and software versions | |
| Sample notes | Control for 24 hr co-cultures; REH (ACC-20) cell line is ALL leukemia cell line |
| Analysis notes | Originally downloaded/processed many samples also present in Teppo2016genome - final versions under that ID; Ran qc redo nextflow |
| Sample QC score | 1 |
| Sample NRO score | 2 |
| Raw read length | 51 |
| Read depth after trimming | 39,866,930 |
| Duplication proportion | 0.4207 |
| Proportion reads mapped | 0.9224 |
| Exon/intron ratio | 3.95142 |
| Unique read proportion | 0.64905 |
| Total # Tfit bidirectionals | 33512 |
| # Promoter Tfit bidirectionals | 16130 |
| # Intronic Tfit bidirectionals | 12098 |
| # Intergenic Tfit bidirectionals | 6064 |
| Total # dREG bidirectionals | 24347 |
| # Promoter dREG bidirectionals | 8117 |
| # Intronic dREG bidirectionals | 10370 |
| # Intergenic dREG bidirectionals | 5256 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |