Resource
| Id | DNase-seq/ENCSR617SVO |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR617SVO [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 {ENCFF066YOO|/files/ENCFF066YOO/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.28. 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_ENCSR617SVO | float |
DNase-seq_ENCSR617SVO |
DNase-seq ENCSR617SVO [biosample_summary="Homo sapiens with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years)"]
|
 |
[0.0812, 10.4] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 11097103 | 0.34% | 60195 |
| chr1 | 996197 | 0.40% | 5388 |
| chr2 | 938772 | 0.39% | 5100 |
| chr3 | 576624 | 0.29% | 3172 |
| chr4 | 408978 | 0.22% | 2206 |
| chr5 | 545812 | 0.30% | 2985 |
| chr6 | 486000 | 0.28% | 2673 |
| chr7 | 556493 | 0.35% | 3029 |
| chr8 | 537811 | 0.37% | 2937 |
| chr9 | 508388 | 0.37% | 2736 |
| chr10 | 618033 | 0.46% | 3376 |
| chr11 | 638735 | 0.47% | 3482 |
| chr12 | 460797 | 0.35% | 2488 |
| chr13 | 234427 | 0.20% | 1249 |
| chr14 | 398620 | 0.37% | 2130 |
| chr15 | 357736 | 0.35% | 1960 |
| chr16 | 414173 | 0.46% | 2242 |
| chr17 | 584793 | 0.70% | 3174 |
| chr18 | 204140 | 0.25% | 1112 |
| chr19 | 535743 | 0.91% | 2759 |
| chr20 | 324740 | 0.50% | 1818 |
| chr21 | 158201 | 0.34% | 885 |
| chr22 | 394951 | 0.78% | 2112 |
| chrX | 215939 | 0.14% | 1174 |
| chrY | 1000 | <0.01% | 8 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 60195 | 1 | 960 | 184.35 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF293NTN.bed.gz | 638.49 KB | 6d5fe8ff75eb4b7400c6f11e8676547a |
| ENCFF293NTN.tabix.bed.gz | 581.24 KB | 9369a0bc6de91dbb22a3a815893d13a4 |
| ENCFF293NTN.tabix.bed.gz.tbi | 236.29 KB | 29e3bd80b110a85fdeda934fee24f4d4 |
| genomic_resource.yaml | 2.3 KB | 0bfda3aec955c4e131f0c91ea82184fa |
| statistics/ |