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SRZ5944950 Sample ID 880
| Paper identifier | Gao2017thyroid |
| SRP accession | SRP115827 |
| GEO accession | GSE102819 |
| Samples | SRR5944950 |
| SRR5944952 |
| 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 | control |
| Wildtype & Untreated? | True |
| Outlier | No |
| Unusable | No |
| TDF visualization file | TDF file | 62 Mb |
| Stranded gene read counts | TXT file | 1 Mb |
| Unstranded bidirectional read counts | TXT file | 21 Mb |
| Tfit bidirectional regions | BED file | 657 Kb |
| dREG bidirectional regions | BED file | 239 Kb |
| All data files | ZIP archive | |
| Organism | H. sapiens |
| Sample type | primary cell |
| Cell type | CD34+ erythroblast |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| vehicle | DMSO | -6 hr | 0 hr | 6 hr |
| Pipeline info and software versions | |
| Sample notes | No clear replicate information - paper makes no mention of biological replicates for GRO-Seq but does for RNA-Seq, so these may be technical replicates |
| Analysis notes |
| Sample QC score | 4 |
| Sample NRO score | 2 |
| Raw read length | 50 |
| Read depth after trimming | 73,409,312 |
| Duplication proportion | 0.86163 |
| Proportion reads mapped | 0.8293 |
| Exon/intron ratio | 3.64671 |
| Unique read proportion | 0.17701 |
| Total # Tfit bidirectionals | 7578 |
| # Promoter Tfit bidirectionals | 3780 |
| # Intronic Tfit bidirectionals | 2769 |
| # Intergenic Tfit bidirectionals | 301 |
| Total # dREG bidirectionals | 5535 |
| # Promoter dREG bidirectionals | 3212 |
| # Intronic dREG bidirectionals | 1703 |
| # Intergenic dREG bidirectionals | 767 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |