Resource
| Id | DNase-seq/ENCSR366EQH |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR366EQH [biosample_summary="Homo sapiens large intestine tissue male embryo (115 days)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male embryo (115 days) output_type: peaks audit_internal_action: Archived analysis {ENCAN262SVD|/analyses/ENCAN262SVD/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF163MHN|/files/ENCFF163MHN/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 22337770 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 {ENCFF258ARL|/files/ENCFF258ARL/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 22156276 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_ENCSR366EQH | float |
DNase-seq_ENCSR366EQH |
DNase-seq ENCSR366EQH [biosample_summary="Homo sapiens large intestine tissue male embryo (115 days)"]
|
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[3, 1.06e+03] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 9014986 | 0.28% | 59900 |
| chr1 | 866755 | 0.35% | 5765 |
| chr2 | 707179 | 0.29% | 4694 |
| chr3 | 576454 | 0.29% | 3820 |
| chr4 | 447061 | 0.24% | 2969 |
| chr5 | 476121 | 0.26% | 3164 |
| chr6 | 541005 | 0.32% | 3589 |
| chr7 | 454917 | 0.29% | 3024 |
| chr8 | 394128 | 0.27% | 2618 |
| chr9 | 385876 | 0.28% | 2564 |
| chr10 | 424919 | 0.32% | 2820 |
| chr11 | 461721 | 0.34% | 3075 |
| chr12 | 454081 | 0.34% | 3018 |
| chr13 | 232584 | 0.20% | 1541 |
| chr14 | 289536 | 0.27% | 1921 |
| chr15 | 280438 | 0.27% | 1863 |
| chr16 | 313640 | 0.35% | 2087 |
| chr17 | 397571 | 0.48% | 2645 |
| chr18 | 197371 | 0.25% | 1313 |
| chr19 | 371087 | 0.63% | 2472 |
| chr20 | 237056 | 0.37% | 1574 |
| chr21 | 104550 | 0.22% | 696 |
| chr22 | 170344 | 0.34% | 1135 |
| chrX | 222042 | 0.14% | 1476 |
| chrY | 8550 | 0.01% | 57 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 59900 | 31 | 419 | 150.5 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF343JUT.bed.gz | 584.55 KB | b74551268c7ebfb23f194bdaafab0d49 |
| ENCFF343JUT.tabix.bed.gz | 500.5 KB | 569a978fd8d0151b1370650344354462 |
| ENCFF343JUT.tabix.bed.gz.tbi | 322.38 KB | 82a710198a875013d85f53b5eb8857ed |
| genomic_resource.yaml | 2.6 KB | a3996a6ccf5764023eb4f7b36eb56e2b |
| statistics/ |
