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SRZ8795471 Sample ID 1278
| Paper identifier | Kriaucionis2019unpublished |
| SRP accession | SRP189657 |
| GEO accession | GSE128951 |
| Samples | SRR8795471 |
| SRR8795472 | |
| SRR8795473 | |
| SRR8795474 | |
| SRR8795475 | |
| SRR8795476 | |
| SRR8795477 | |
| SRR8795478 |
| QC score | 1 |
| Replicate | 3 |
| Protocol | PRO-seq |
| Library prep | ligation |
| Spike-in | G. gallus |
| Single/Paired end | single |
| Raw strandedness | reverse |
| Reverse complemented? | True |
| Mapped strandedness | forward |
| Timecourse | False |
| Control/Experimental | experimental |
| Wildtype & Untreated? | False |
| Outlier | No |
| Unusable | No |
| TDF visualization file | TDF file | 144 Mb |
| Stranded gene read counts | TXT file | 1 Mb |
| Unstranded bidirectional read counts | TXT file | 21 Mb |
| Tfit bidirectional regions | BED file | 3 Mb |
| dREG bidirectional regions | BED file | 805 Kb |
| All data files | ZIP archive | |
| Organism | H. sapiens |
| Sample type | cell line |
| Cell type | HEK293T Flp-In |
| Clone/Individual | |
| Strain | |
| Genotype | |
| Construct | dox-inducible Tet-CD-GFP |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | 5-aza-2'-deoxycytidine (880 nM) | -2 day | 0 day | 2 day |
| Pipeline info and software versions | |
| Sample notes | Not clear what construct is or whether it's genomically integrated, but it may be the catalytic domain of Tet1 or another human Tet protein (not published or detailed in GEO) |
| Analysis notes | Ran qc redo nextflow |
| Sample QC score | 1 |
| Sample NRO score | 2 |
| Raw read length | 35 |
| Read depth after trimming | 85,040,736 |
| Duplication proportion | 0.33057 |
| Proportion reads mapped | 0.3834 |
| Exon/intron ratio | 4.37306 |
| Unique read proportion | 0.7793 |
| Total # Tfit bidirectionals | 29899 |
| # Promoter Tfit bidirectionals | 15424 |
| # Intronic Tfit bidirectionals | 10800 |
| # Intergenic Tfit bidirectionals | 4097 |
| Total # dREG bidirectionals | 18211 |
| # Promoter dREG bidirectionals | 7386 |
| # Intronic dREG bidirectionals | 6988 |
| # Intergenic dREG bidirectionals | 2406 |
| Part of Tfit master merge? | False |
| Part of dREG master merge? | False |