Resource
| Id | DNase-seq/ENCSR928PKL |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR928PKL [biosample_summary="Homo sapiens with Cognitive impairment; dorsolateral prefrontal cortex tissue female adult (81 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (81 years) with Cognitive impairment 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 {ENCFF479FLN|/files/ENCFF479FLN/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.37. 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_ENCSR928PKL | float |
DNase-seq_ENCSR928PKL |
DNase-seq ENCSR928PKL [biosample_summary="Homo sapiens with Cognitive impairment; dorsolateral prefrontal cortex tissue female adult (81 years)"]
|
 |
[0.109, 14.3] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 8264038 | 0.26% | 44796 |
| chr1 | 803056 | 0.32% | 4391 |
| chr2 | 586697 | 0.24% | 3209 |
| chr3 | 480331 | 0.24% | 2557 |
| chr4 | 313559 | 0.16% | 1707 |
| chr5 | 407221 | 0.22% | 2251 |
| chr6 | 424902 | 0.25% | 2293 |
| chr7 | 389844 | 0.24% | 2167 |
| chr8 | 358585 | 0.25% | 2002 |
| chr9 | 350653 | 0.25% | 1893 |
| chr10 | 369710 | 0.28% | 2028 |
| chr11 | 474904 | 0.35% | 2597 |
| chr12 | 409035 | 0.31% | 2204 |
| chr13 | 166560 | 0.15% | 905 |
| chr14 | 262367 | 0.25% | 1430 |
| chr15 | 275351 | 0.27% | 1535 |
| chr16 | 333069 | 0.37% | 1755 |
| chr17 | 438444 | 0.53% | 2388 |
| chr18 | 149544 | 0.19% | 829 |
| chr19 | 492107 | 0.84% | 2466 |
| chr20 | 249735 | 0.39% | 1379 |
| chr21 | 101489 | 0.22% | 548 |
| chr22 | 227233 | 0.45% | 1217 |
| chrX | 199334 | 0.13% | 1042 |
| chrY | 308 | <0.01% | 3 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 44796 | 3 | 840 | 184.48 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF803KTY.bed.gz | 493.52 KB | 3ac06217234e43eb4362f413d8234655 |
| ENCFF803KTY.tabix.bed.gz | 445.56 KB | 8119f8a3044f2f78a96b22da4224369c |
| ENCFF803KTY.tabix.bed.gz.tbi | 230.98 KB | 1c7b79d1b55377ddf7c52e9f05e4d15f |
| genomic_resource.yaml | 2.22 KB | 65fd74312dc81c7282bfe9be282e8db9 |
| statistics/ |