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SRR1652070 Sample ID 2605
| Paper identifier | Wang2015lsd1n |
| SRP accession | SRP049780 |
| GEO accession | GSE63271 |
| Samples | SRR1652070 |
| QC score | 3 |
| Replicate | 1 |
| Protocol | GRO-seq |
| Library prep | ligation |
| 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 | 43 Mb |
| Stranded gene read counts | TXT file | 911 Kb |
| Unstranded bidirectional read counts | TXT file | 17 Mb |
| Tfit bidirectional regions | BED file | 453 Kb |
| dREG bidirectional regions | BED file | 152 Kb |
| All data files | ZIP archive | |
| Organism | M. musculus |
| Sample type | primary cell |
| Cell type | cortical neuron |
| Clone/Individual | |
| Strain | |
| Genotype | Lsd1 exon 8a fl/fl |
| Construct |
| Condition type | Treatment | Start time | End time | Duration |
| treatment | KCl (55 mM) | -3 hr | 0 hr | 3 hr |
| treatment | tetrodotoxin (1 microM) | -17 hr | -3 hr | 14 hr |
| Pipeline info and software versions | |
| Sample notes | Labeled as hs82l1, but unclear the meaning |
| Analysis notes | Ran qc redo nextflow |
| Sample QC score | 3 |
| Sample NRO score | 3 |
| Raw read length | 50 |
| Read depth after trimming | 25,493,530 |
| Duplication proportion | 0.67483 |
| Proportion reads mapped | 0.761 |
| Exon/intron ratio | 5.19433 |
| Unique read proportion | 0.34769 |
| Total # Tfit bidirectionals | 5401 |
| # Promoter Tfit bidirectionals | 1588 |
| # Intronic Tfit bidirectionals | 1788 |
| # Intergenic Tfit bidirectionals | 124 |
| Total # dREG bidirectionals | 3530 |
| # Promoter dREG bidirectionals | 1329 |
| # Intronic dREG bidirectionals | 1007 |
| # Intergenic dREG bidirectionals | 684 |
| Part of Tfit master merge? | True |
| Part of dREG master merge? | True |