Resource
| Id | DNase-seq/ENCSR173NHL |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR173NHL [biosample_summary="Homo sapiens head of caudate nucleus tissue female adult (90 or above years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (90 or above 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 {ENCFF727VRD|/files/ENCFF727VRD/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.40. 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_ENCSR173NHL | float |
DNase-seq_ENCSR173NHL |
DNase-seq ENCSR173NHL [biosample_summary="Homo sapiens head of caudate nucleus tissue female adult (90 or above years)"]
|
 |
[0.0418, 25.2] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 17365947 | 0.54% | 92192 |
| chr1 | 1657169 | 0.67% | 8725 |
| chr2 | 1373659 | 0.57% | 7367 |
| chr3 | 965655 | 0.49% | 5117 |
| chr4 | 645430 | 0.34% | 3431 |
| chr5 | 857456 | 0.47% | 4546 |
| chr6 | 938745 | 0.55% | 4935 |
| chr7 | 863595 | 0.54% | 4615 |
| chr8 | 704730 | 0.49% | 3770 |
| chr9 | 825154 | 0.60% | 4340 |
| chr10 | 976016 | 0.73% | 5236 |
| chr11 | 947577 | 0.70% | 5057 |
| chr12 | 759261 | 0.57% | 3975 |
| chr13 | 386724 | 0.34% | 2057 |
| chr14 | 584837 | 0.55% | 3111 |
| chr15 | 637268 | 0.62% | 3355 |
| chr16 | 652088 | 0.72% | 3509 |
| chr17 | 844137 | 1.01% | 4473 |
| chr18 | 332103 | 0.41% | 1786 |
| chr19 | 831099 | 1.42% | 4296 |
| chr20 | 520555 | 0.81% | 2790 |
| chr21 | 202456 | 0.43% | 1095 |
| chr22 | 430119 | 0.85% | 2317 |
| chrX | 429375 | 0.28% | 2283 |
| chrY | 739 | <0.01% | 6 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 92192 | 1 | 952 | 188.37 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF084OJU.bed.gz | 1021.23 KB | 958e591a0e634264e0b2a8967e80f43d |
| ENCFF084OJU.tabix.bed.gz | 933.58 KB | 5e861e784b998dfd135dde34f7ebdfae |
| ENCFF084OJU.tabix.bed.gz.tbi | 341.4 KB | 136b8bec81890398f4e452640e6de05d |
| genomic_resource.yaml | 2.12 KB | 5919e3be4e22a78c751db40e0a10f158 |
| statistics/ |