Resource
| Id | DNase-seq/ENCSR862SQC |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR862SQC [biosample_summary="Homo sapiens head of caudate nucleus tissue male adult (84 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (84 years) output_type: peaks audit_warning: Signal Portion of Tags (SPOT) is a measure of enrichment, analogous to the commonly used fraction of reads in peaks metric. ENCODE processed alignment files {ENCFF359FJQ|/files/ENCFF359FJQ/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.32. According to ENCODE standards, SPOT1 score of 0.4 or higher is considered a product of high quality data. Any sample with a SPOT1 score <0.3 should be targeted for replacement with a higher quality sample, and a SPOT1 score of 0.25 is considered minimally acceptable SPOT1 score of 0.25 is considered minimally acceptable for rare and hard to find primary tissues. (See {ENCODE DNase-seq data standards|/data-standards/dnase-seq-encode4/}) |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR862SQC | float |
DNase-seq_ENCSR862SQC |
DNase-seq ENCSR862SQC [biosample_summary="Homo sapiens head of caudate nucleus tissue male adult (84 years)"]
|
 |
[0.0571, 19.4] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 22991390 | 0.71% | 117419 |
| chr1 | 2103980 | 0.85% | 10684 |
| chr2 | 1782792 | 0.74% | 9242 |
| chr3 | 1476681 | 0.74% | 7526 |
| chr4 | 1104711 | 0.58% | 5672 |
| chr5 | 1261531 | 0.69% | 6431 |
| chr6 | 1335063 | 0.78% | 6813 |
| chr7 | 1185092 | 0.74% | 6097 |
| chr8 | 1050201 | 0.72% | 5400 |
| chr9 | 974497 | 0.70% | 4970 |
| chr10 | 1103174 | 0.82% | 5637 |
| chr11 | 1237862 | 0.92% | 6275 |
| chr12 | 1132849 | 0.85% | 5731 |
| chr13 | 611743 | 0.53% | 3167 |
| chr14 | 776967 | 0.73% | 3960 |
| chr15 | 738731 | 0.72% | 3774 |
| chr16 | 815174 | 0.90% | 4117 |
| chr17 | 981457 | 1.18% | 4985 |
| chr18 | 512901 | 0.64% | 2619 |
| chr19 | 850537 | 1.45% | 4151 |
| chr20 | 618950 | 0.96% | 3206 |
| chr21 | 262704 | 0.56% | 1343 |
| chr22 | 433751 | 0.85% | 2204 |
| chrX | 608645 | 0.39% | 3253 |
| chrY | 31397 | 0.05% | 162 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 117419 | 2 | 1064 | 195.81 | 200 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF060BYF.bed.gz | 1.24 MB | 0140ed8f98e70571031de11a760dbdc0 |
| ENCFF060BYF.tabix.bed.gz | 1.13 MB | 89f5974cf47f7eeec03cd6c048cb0834 |
| ENCFF060BYF.tabix.bed.gz.tbi | 504.71 KB | 7f193e0847e5775d7799c35b8449aa24 |
| genomic_resource.yaml | 2.06 KB | d8e304804b867e1f6bb7234f26fd20dd |
| statistics/ |