Resource
| Id | DNase-seq/ENCSR039ZVQ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR039ZVQ [biosample_summary="Homo sapiens left renal cortex interstitium tissue male embryo (120 days)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male embryo (120 days) output_type: peaks audit_internal_action: Archived analysis {ENCAN116RGJ|/analyses/ENCAN116RGJ/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF228PWX|/files/ENCFF228PWX/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 22849730 mapped reads. According to ENCODE standards, conventional DNase-seq profile requires a minimum of 20 million uniquely mapped reads to generate a reliable SPOT (Signal Portion of Tags) score. The recommended value is > 50 million. For deep, foot-printing depth DNase-seq 150-200 million uniquely mapped reads are recommended. (See {ENCODE DNase-seq data standards|/data-standards/dnase-seq/}) audit_warning: Alignment file {ENCFF738LZH|/files/ENCFF738LZH/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 22697092 mapped reads. According to ENCODE standards, conventional DNase-seq profile requires a minimum of 20 million uniquely mapped reads to generate a reliable SPOT (Signal Portion of Tags) score. The recommended value is > 50 million. For deep, foot-printing depth DNase-seq 150-200 million uniquely mapped reads are recommended. (See {ENCODE DNase-seq data standards|/data-standards/dnase-seq/}) |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR039ZVQ | float |
DNase-seq_ENCSR039ZVQ |
DNase-seq ENCSR039ZVQ [biosample_summary="Homo sapiens left renal cortex interstitium tissue male embryo (120 days)"]
|
 |
[2, 307] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 9107540 | 0.28% | 60407 |
| chr1 | 843060 | 0.34% | 5592 |
| chr2 | 727304 | 0.30% | 4813 |
| chr3 | 595203 | 0.30% | 3948 |
| chr4 | 486032 | 0.26% | 3223 |
| chr5 | 502479 | 0.28% | 3331 |
| chr6 | 545915 | 0.32% | 3627 |
| chr7 | 448409 | 0.28% | 2973 |
| chr8 | 421823 | 0.29% | 2799 |
| chr9 | 383165 | 0.28% | 2540 |
| chr10 | 442990 | 0.33% | 2936 |
| chr11 | 467481 | 0.35% | 3097 |
| chr12 | 457060 | 0.34% | 3026 |
| chr13 | 241737 | 0.21% | 1606 |
| chr14 | 295267 | 0.28% | 1958 |
| chr15 | 292828 | 0.29% | 1945 |
| chr16 | 289225 | 0.32% | 1923 |
| chr17 | 364140 | 0.44% | 2417 |
| chr18 | 217816 | 0.27% | 1441 |
| chr19 | 349236 | 0.60% | 2322 |
| chr20 | 245020 | 0.38% | 1621 |
| chr21 | 100254 | 0.21% | 668 |
| chr22 | 153418 | 0.30% | 1021 |
| chrX | 228986 | 0.15% | 1522 |
| chrY | 8692 | 0.02% | 58 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 60407 | 24 | 525 | 150.77 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF371AFC.bed.gz | 584.61 KB | d24ccc1c02a092b456488d734af3ff6e |
| ENCFF371AFC.tabix.bed.gz | 500.15 KB | f78724241726c6b67784fd081cbf441a |
| ENCFF371AFC.tabix.bed.gz.tbi | 317.79 KB | 861617755a68ea787f84feb2c5355453 |
| genomic_resource.yaml | 2.65 KB | 98e74298210692ecf446758872718fe0 |
| statistics/ |