Resource
| Id | DNase-seq/ENCSR000EPH |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR000EPH [biosample_summary="Homo sapiens MCF-7"] |
| Description |
status: released biological_replicates: Rep 2 summary: output_type: peaks audit_internal_action: Archived analysis {ENCAN069OPA|/analyses/ENCAN069OPA/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF100MIL|/files/ENCFF100MIL/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 44796019 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 {ENCFF955DEC|/files/ENCFF955DEC/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 44577938 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_ENCSR000EPH | float |
DNase-seq_ENCSR000EPH |
DNase-seq ENCSR000EPH [biosample_summary="Homo sapiens MCF-7"]
|
 |
[3, 9.18e+04] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 32567435 | 1.01% | 216848 |
| chr1 | 2788080 | 1.12% | 18558 |
| chr2 | 2716606 | 1.12% | 18085 |
| chr3 | 2357645 | 1.19% | 15702 |
| chr4 | 1804881 | 0.95% | 12017 |
| chr5 | 2031884 | 1.12% | 13523 |
| chr6 | 1823991 | 1.07% | 12147 |
| chr7 | 1835966 | 1.15% | 12228 |
| chr8 | 1579912 | 1.09% | 10520 |
| chr9 | 1287995 | 0.93% | 8580 |
| chr10 | 1555131 | 1.16% | 10353 |
| chr11 | 1388584 | 1.03% | 9245 |
| chr12 | 1618036 | 1.21% | 10772 |
| chr13 | 849600 | 0.74% | 5656 |
| chr14 | 1163828 | 1.09% | 7754 |
| chr15 | 969742 | 0.95% | 6458 |
| chr16 | 979200 | 1.08% | 6519 |
| chr17 | 1243982 | 1.49% | 8287 |
| chr18 | 626100 | 0.78% | 4165 |
| chr19 | 851550 | 1.45% | 5672 |
| chr20 | 1043700 | 1.62% | 6955 |
| chr21 | 391753 | 0.84% | 2610 |
| chr22 | 426900 | 0.84% | 2846 |
| chrX | 1226969 | 0.79% | 8160 |
| chrY | 5400 | 0.01% | 36 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 216848 | 12 | 431 | 150.19 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF229SJW.bed.gz | 2.05 MB | ee364c920c0f415bed3feb5c21d4a2c1 |
| ENCFF229SJW.tabix.bed.gz | 1.77 MB | c7ab21b50a6da05b3d9c597b68a56097 |
| ENCFF229SJW.tabix.bed.gz.tbi | 771.27 KB | c0a8492c6b8718cd2d0066da466997da |
| genomic_resource.yaml | 2.49 KB | 2523f2f2145d9623e85dadc599e2d46d |
| statistics/ |