Resource
| Id | DNase-seq/ENCSR498RLX |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR498RLX [biosample_summary="Homo sapiens with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (90 or above years) with mild 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 {ENCFF246QEH|/files/ENCFF246QEH/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.34. 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_ENCSR498RLX | float |
DNase-seq_ENCSR498RLX |
DNase-seq ENCSR498RLX [biosample_summary="Homo sapiens with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years)"]
|
 |
[0.0693, 22.3] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 13422187 | 0.42% | 70052 |
| chr1 | 1241737 | 0.50% | 6438 |
| chr2 | 1125392 | 0.46% | 5963 |
| chr3 | 724487 | 0.37% | 3809 |
| chr4 | 481576 | 0.25% | 2494 |
| chr5 | 633703 | 0.35% | 3366 |
| chr6 | 673685 | 0.39% | 3538 |
| chr7 | 621547 | 0.39% | 3294 |
| chr8 | 567470 | 0.39% | 3010 |
| chr9 | 637640 | 0.46% | 3326 |
| chr10 | 778099 | 0.58% | 4036 |
| chr11 | 787274 | 0.58% | 4070 |
| chr12 | 575381 | 0.43% | 2947 |
| chr13 | 295314 | 0.26% | 1573 |
| chr14 | 443753 | 0.41% | 2361 |
| chr15 | 493139 | 0.48% | 2532 |
| chr16 | 511169 | 0.57% | 2631 |
| chr17 | 669174 | 0.80% | 3449 |
| chr18 | 264339 | 0.33% | 1424 |
| chr19 | 630048 | 1.07% | 3131 |
| chr20 | 413747 | 0.64% | 2174 |
| chr21 | 178858 | 0.38% | 947 |
| chr22 | 365836 | 0.72% | 1923 |
| chrX | 308276 | 0.20% | 1611 |
| chrY | 543 | <0.01% | 5 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 70052 | 1 | 1111 | 191.6 | 192 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF035BFR.bed.gz | 764.0 KB | 386539ddf207b026cf4623c6bd20cc81 |
| ENCFF035BFR.tabix.bed.gz | 696.6 KB | 706359b5d12c87cacd80ad4c7a302b4d |
| ENCFF035BFR.tabix.bed.gz.tbi | 276.58 KB | fb856989c147e6fbc0048c5a2673bfe4 |
| genomic_resource.yaml | 2.31 KB | d2cb4f4d9aa268b0a1ed8dadc1de3b99 |
| statistics/ |