Resource
| Id | DNase-seq/ENCSR456KDF |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR456KDF [biosample_summary="Homo sapiens left lung tissue female embryo (108 days)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female embryo (108 days) output_type: peaks audit_internal_action: Archived analysis {ENCAN772WPG|/analyses/ENCAN772WPG/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF670GBC|/files/ENCFF670GBC/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 21432626 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 {ENCFF399YBZ|/files/ENCFF399YBZ/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 21321446 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_ENCSR456KDF | float |
DNase-seq_ENCSR456KDF |
DNase-seq ENCSR456KDF [biosample_summary="Homo sapiens left lung tissue female embryo (108 days)"]
|
 |
[2, 818] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 15249904 | 0.47% | 101513 |
| chr1 | 1360926 | 0.55% | 9061 |
| chr2 | 1275730 | 0.53% | 8493 |
| chr3 | 1022899 | 0.52% | 6813 |
| chr4 | 810732 | 0.43% | 5389 |
| chr5 | 893471 | 0.49% | 5942 |
| chr6 | 935936 | 0.55% | 6236 |
| chr7 | 792586 | 0.50% | 5275 |
| chr8 | 736050 | 0.51% | 4900 |
| chr9 | 643950 | 0.47% | 4284 |
| chr10 | 765300 | 0.57% | 5096 |
| chr11 | 762813 | 0.56% | 5080 |
| chr12 | 733793 | 0.55% | 4885 |
| chr13 | 460500 | 0.40% | 3059 |
| chr14 | 467155 | 0.44% | 3113 |
| chr15 | 488367 | 0.48% | 3252 |
| chr16 | 453950 | 0.50% | 3020 |
| chr17 | 582150 | 0.70% | 3875 |
| chr18 | 366900 | 0.46% | 2444 |
| chr19 | 449073 | 0.77% | 2991 |
| chr20 | 376493 | 0.58% | 2507 |
| chr21 | 172800 | 0.37% | 1150 |
| chr22 | 241304 | 0.47% | 1607 |
| chrX | 456126 | 0.29% | 3035 |
| chrY | 900 | <0.01% | 6 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 101513 | 41 | 450 | 150.23 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF484YOE.bed.gz | 985.88 KB | d66768463624c137208fced72154ac3c |
| ENCFF484YOE.tabix.bed.gz | 850.05 KB | 8cb319e80ad8374633887921dcee3ce5 |
| ENCFF484YOE.tabix.bed.gz.tbi | 492.96 KB | b8cd312feedb1e60a7500f8b470ddecb |
| genomic_resource.yaml | 2.59 KB | b78e410a65cb8ec610877ff41a796dbe |
| statistics/ |