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SRR1951435 Sample ID 947
| Paper identifier | Heinaniemi2016transcription |
| SRP accession | SRP056832 |
| GEO accession | GSE67540 |
| Samples | SRR1951435 |
| QC score | 3 |
| 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 | 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 | REH |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | stromal cell co-culture | -48 hr | 0 hr | 2 day |
| Pipeline info and software versions | |
| Sample notes | 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 | 3 |
| Sample NRO score | 2 |
| Raw read length | 51 |
| Read depth after trimming | 11,102,093 |
| Duplication proportion | 0.42283 |
| Proportion reads mapped | 0.9454 |
| Exon/intron ratio | 3.18338 |
| Unique read proportion | 0.58028 |
| Total # Tfit bidirectionals | 14293 |
| # Promoter Tfit bidirectionals | 5945 |
| # Intronic Tfit bidirectionals | 5720 |
| # Intergenic Tfit bidirectionals | 2089 |
| Total # dREG bidirectionals | 8702 |
| # Promoter dREG bidirectionals | 4680 |
| # Intronic dREG bidirectionals | 2778 |
| # Intergenic dREG bidirectionals | 1308 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |