Resource
| Id | DNase-seq/ENCSR598RRF |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR598RRF [biosample_summary="Homo sapiens head of caudate nucleus tissue female adult (87 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (87 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 {ENCFF187FTX|/files/ENCFF187FTX/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.27. 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_ENCSR598RRF | float |
DNase-seq_ENCSR598RRF |
DNase-seq ENCSR598RRF [biosample_summary="Homo sapiens head of caudate nucleus tissue female adult (87 years)"]
|
 |
[0.0453, 15.4] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 18243797 | 0.57% | 91790 |
| chr1 | 1750000 | 0.70% | 8745 |
| chr2 | 1358237 | 0.56% | 6912 |
| chr3 | 1100112 | 0.55% | 5568 |
| chr4 | 783029 | 0.41% | 3977 |
| chr5 | 952229 | 0.52% | 4817 |
| chr6 | 1014360 | 0.59% | 5065 |
| chr7 | 915311 | 0.57% | 4674 |
| chr8 | 800744 | 0.55% | 4095 |
| chr9 | 784449 | 0.57% | 3926 |
| chr10 | 860938 | 0.64% | 4337 |
| chr11 | 1007088 | 0.75% | 5042 |
| chr12 | 909836 | 0.68% | 4521 |
| chr13 | 424764 | 0.37% | 2163 |
| chr14 | 611952 | 0.57% | 3093 |
| chr15 | 598011 | 0.59% | 3006 |
| chr16 | 694042 | 0.77% | 3519 |
| chr17 | 882703 | 1.06% | 4371 |
| chr18 | 367075 | 0.46% | 1856 |
| chr19 | 842558 | 1.44% | 4039 |
| chr20 | 519852 | 0.81% | 2672 |
| chr21 | 199733 | 0.43% | 1011 |
| chr22 | 390178 | 0.77% | 1970 |
| chrX | 476034 | 0.31% | 2407 |
| chrY | 562 | <0.01% | 4 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 91790 | 1 | 1080 | 198.76 | 200 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF947BGT.bed.gz | 1012.28 KB | 29f403ee2031e96423aeb7b505099310 |
| ENCFF947BGT.tabix.bed.gz | 925.85 KB | d4f9c60f688697ae03ce90af90086f7e |
| ENCFF947BGT.tabix.bed.gz.tbi | 408.98 KB | 213eb7557d843303daa48517a2ea35a3 |
| genomic_resource.yaml | 2.07 KB | 7c74413f3c60f780015222d682e7f4e6 |
| statistics/ |