Resource
| Id | DNase-seq/ENCSR214XJO |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR214XJO [biosample_summary="Homo sapiens lung tissue female embryo (120 days)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female embryo (120 days) output_type: peaks audit_internal_action: Archived analysis {ENCAN704RYM|/analyses/ENCAN704RYM/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF408YYO|/files/ENCFF408YYO/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 28022280 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 {ENCFF276MYG|/files/ENCFF276MYG/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 27826342 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_ENCSR214XJO | float |
DNase-seq_ENCSR214XJO |
DNase-seq ENCSR214XJO [biosample_summary="Homo sapiens lung tissue female embryo (120 days)"]
|
 |
[3, 1.5e+03] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 14773092 | 0.46% | 98317 |
| chr1 | 1330462 | 0.53% | 8858 |
| chr2 | 1206750 | 0.50% | 8029 |
| chr3 | 980366 | 0.49% | 6527 |
| chr4 | 779400 | 0.41% | 5175 |
| chr5 | 853494 | 0.47% | 5681 |
| chr6 | 892050 | 0.52% | 5933 |
| chr7 | 767495 | 0.48% | 5105 |
| chr8 | 691650 | 0.48% | 4603 |
| chr9 | 609178 | 0.44% | 4060 |
| chr10 | 735961 | 0.55% | 4896 |
| chr11 | 754944 | 0.56% | 5027 |
| chr12 | 714879 | 0.54% | 4759 |
| chr13 | 425550 | 0.37% | 2831 |
| chr14 | 456900 | 0.43% | 3040 |
| chr15 | 465106 | 0.46% | 3097 |
| chr16 | 451050 | 0.50% | 3002 |
| chr17 | 590477 | 0.71% | 3929 |
| chr18 | 351000 | 0.44% | 2335 |
| chr19 | 476400 | 0.81% | 3175 |
| chr20 | 374180 | 0.58% | 2491 |
| chr21 | 170850 | 0.37% | 1139 |
| chr22 | 244650 | 0.48% | 1630 |
| chrX | 449100 | 0.29% | 2987 |
| chrY | 1200 | <0.01% | 8 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 98317 | 82 | 450 | 150.26 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF909JGU.bed.gz | 955.68 KB | 251860b20866dd116cc9ed19f3cf6307 |
| ENCFF909JGU.tabix.bed.gz | 823.51 KB | 3429a3340aebab2e1374f8003705fed6 |
| ENCFF909JGU.tabix.bed.gz.tbi | 485.67 KB | a5032a194dcac73ad5e463eae0659823 |
| genomic_resource.yaml | 2.58 KB | 664f229b93170e2947c314c18eb1509b |
| statistics/ |