Resource
| Id | DNase-seq/ENCSR796YOJ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR796YOJ [biosample_summary="Homo sapiens with Alzheimer''s disease; 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 Alzheimer's disease 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 {ENCFF958AIS|/files/ENCFF958AIS/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 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_ENCSR796YOJ | float |
DNase-seq_ENCSR796YOJ |
DNase-seq ENCSR796YOJ [biosample_summary="Homo sapiens with Alzheimer''s disease; dorsolateral prefrontal cortex tissue female adult (90 or above years)"]
|
 |
[0.0601, 8.75] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 12042756 | 0.37% | 62273 |
| chr1 | 1033040 | 0.41% | 5371 |
| chr2 | 1033078 | 0.43% | 5304 |
| chr3 | 576494 | 0.29% | 2977 |
| chr4 | 420925 | 0.22% | 2104 |
| chr5 | 585351 | 0.32% | 2998 |
| chr6 | 484914 | 0.28% | 2562 |
| chr7 | 632209 | 0.40% | 3236 |
| chr8 | 544463 | 0.38% | 2772 |
| chr9 | 548277 | 0.40% | 2891 |
| chr10 | 720045 | 0.54% | 3750 |
| chr11 | 699672 | 0.52% | 3621 |
| chr12 | 491455 | 0.37% | 2503 |
| chr13 | 244921 | 0.21% | 1259 |
| chr14 | 425397 | 0.40% | 2219 |
| chr15 | 445951 | 0.44% | 2370 |
| chr16 | 478748 | 0.53% | 2520 |
| chr17 | 628676 | 0.76% | 3267 |
| chr18 | 236137 | 0.29% | 1242 |
| chr19 | 512548 | 0.87% | 2561 |
| chr20 | 322691 | 0.50% | 1718 |
| chr21 | 194935 | 0.42% | 1016 |
| chr22 | 495586 | 0.98% | 2519 |
| chrX | 286025 | 0.18% | 1483 |
| chrY | 1218 | <0.01% | 10 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 62273 | 1 | 1078 | 193.39 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF084BJV.bed.gz | 642.12 KB | 0b9bfacee4b435955db200a56c2ec8a3 |
| ENCFF084BJV.tabix.bed.gz | 593.21 KB | 0d51dbc76e8062ab1a6f0d3a1a63c886 |
| ENCFF084BJV.tabix.bed.gz.tbi | 199.08 KB | c26072ce9fee3c5760f44a790864dc5b |
| genomic_resource.yaml | 2.28 KB | 5708e2bb4ca3b12736e509b78a57dffd |
| statistics/ |