Resource
| Id | DNase-seq/ENCSR548MMD |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR548MMD [biosample_summary="Homo sapiens EH"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: peaks audit_warning: Alignment file {ENCFF640FPX|/files/ENCFF640FPX/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 45505371 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-encode4/}) |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR548MMD | float |
DNase-seq_ENCSR548MMD |
DNase-seq ENCSR548MMD [biosample_summary="Homo sapiens EH"]
|
 |
[0.0127, 47.7] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 57424802 | 1.78% | 294879 |
| chr1 | 5302134 | 2.13% | 27408 |
| chr2 | 5016939 | 2.07% | 25741 |
| chr3 | 3981335 | 2.01% | 20461 |
| chr4 | 3055409 | 1.61% | 15816 |
| chr5 | 3349252 | 1.84% | 17122 |
| chr6 | 3625904 | 2.12% | 18422 |
| chr7 | 2831774 | 1.78% | 14585 |
| chr8 | 2810929 | 1.94% | 14386 |
| chr9 | 2437283 | 1.76% | 12520 |
| chr10 | 2787052 | 2.08% | 14372 |
| chr11 | 2836039 | 2.10% | 14499 |
| chr12 | 2932163 | 2.20% | 15009 |
| chr13 | 1536252 | 1.34% | 7895 |
| chr14 | 1707883 | 1.60% | 8787 |
| chr15 | 1955763 | 1.92% | 9965 |
| chr16 | 1632468 | 1.81% | 8440 |
| chr17 | 2231870 | 2.68% | 11441 |
| chr18 | 1283595 | 1.60% | 6612 |
| chr19 | 1472108 | 2.51% | 7547 |
| chr20 | 1405394 | 2.18% | 7188 |
| chr21 | 646329 | 1.38% | 3295 |
| chr22 | 900258 | 1.77% | 4659 |
| chrX | 1598315 | 1.02% | 8253 |
| chrY | 88354 | 0.15% | 456 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 294879 | 1 | 1240 | 194.74 | 199 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF628EXC.bed.gz | 3.22 MB | 8482014eec68574aa471373b062e857f |
| ENCFF628EXC.tabix.bed.gz | 2.93 MB | 7d62ba94a9d864111aae2ed40872439d |
| ENCFF628EXC.tabix.bed.gz.tbi | 707.44 KB | 893e53a04bf98d2131699dc6624a6996 |
| genomic_resource.yaml | 1.69 KB | 2acd07ee76c141ba0a7b0977fe977335 |
| statistics/ |