Resource
| Id | DNase-seq/ENCSR210ESN |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR210ESN [biosample_summary="Homo sapiens with Alzheimer''s disease; dorsolateral prefrontal cortex tissue female adult (74 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (74 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 {ENCFF292PMY|/files/ENCFF292PMY/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.33. 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_ENCSR210ESN | float |
DNase-seq_ENCSR210ESN |
DNase-seq ENCSR210ESN [biosample_summary="Homo sapiens with Alzheimer''s disease; dorsolateral prefrontal cortex tissue female adult (74 years)"]
|
 |
[0.0639, 21.4] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 16298639 | 0.51% | 88767 |
| chr1 | 1405398 | 0.56% | 7673 |
| chr2 | 1529994 | 0.63% | 8330 |
| chr3 | 749805 | 0.38% | 4140 |
| chr4 | 523944 | 0.28% | 2855 |
| chr5 | 771283 | 0.42% | 4232 |
| chr6 | 679895 | 0.40% | 3707 |
| chr7 | 853814 | 0.54% | 4742 |
| chr8 | 717709 | 0.49% | 3934 |
| chr9 | 736423 | 0.53% | 4015 |
| chr10 | 988275 | 0.74% | 5364 |
| chr11 | 922170 | 0.68% | 4970 |
| chr12 | 599971 | 0.45% | 3298 |
| chr13 | 353325 | 0.31% | 1901 |
| chr14 | 619813 | 0.58% | 3394 |
| chr15 | 607631 | 0.60% | 3320 |
| chr16 | 633912 | 0.70% | 3452 |
| chr17 | 857527 | 1.03% | 4634 |
| chr18 | 320012 | 0.40% | 1745 |
| chr19 | 685724 | 1.17% | 3608 |
| chr20 | 494184 | 0.77% | 2770 |
| chr21 | 290581 | 0.62% | 1559 |
| chr22 | 597794 | 1.18% | 3160 |
| chrX | 357773 | 0.23% | 1951 |
| chrY | 1682 | <0.01% | 13 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 88767 | 1 | 1100 | 183.61 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF879NMM.bed.gz | 925.49 KB | 59ed93a3a69176ccdf59d7541a94a675 |
| ENCFF879NMM.tabix.bed.gz | 848.43 KB | ef7a08698eeae26ad08b18a9fa8fc3ce |
| ENCFF879NMM.tabix.bed.gz.tbi | 261.22 KB | c26b69124b46e96bbd636cfb7a9b9e40 |
| genomic_resource.yaml | 2.23 KB | c26f2212382a1854d9e5f9e6ccd059df |
| statistics/ |