Resource
| Id | DNase-seq/ENCSR720FVJ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR720FVJ [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 {ENCFF340VDR|/files/ENCFF340VDR/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.38. 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_ENCSR720FVJ | float |
DNase-seq_ENCSR720FVJ |
DNase-seq ENCSR720FVJ [biosample_summary="Homo sapiens with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years)"]
|
 |
[0.0517, 17.2] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 15552330 | 0.48% | 83036 |
| chr1 | 1389586 | 0.56% | 7410 |
| chr2 | 1262333 | 0.52% | 6718 |
| chr3 | 719711 | 0.36% | 3889 |
| chr4 | 556120 | 0.29% | 2956 |
| chr5 | 757035 | 0.42% | 4040 |
| chr6 | 646519 | 0.38% | 3509 |
| chr7 | 779141 | 0.49% | 4150 |
| chr8 | 673216 | 0.46% | 3586 |
| chr9 | 705929 | 0.51% | 3750 |
| chr10 | 770419 | 0.58% | 4103 |
| chr11 | 915467 | 0.68% | 4874 |
| chr12 | 642665 | 0.48% | 3462 |
| chr13 | 260535 | 0.23% | 1438 |
| chr14 | 555154 | 0.52% | 2995 |
| chr15 | 508911 | 0.50% | 2784 |
| chr16 | 591175 | 0.65% | 3209 |
| chr17 | 967724 | 1.16% | 5185 |
| chr18 | 271978 | 0.34% | 1437 |
| chr19 | 793764 | 1.35% | 4098 |
| chr20 | 443492 | 0.69% | 2421 |
| chr21 | 270979 | 0.58% | 1456 |
| chr22 | 753030 | 1.48% | 3886 |
| chrX | 315891 | 0.20% | 1666 |
| chrY | 1556 | <0.01% | 14 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 83036 | 1 | 940 | 187.3 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF403OFG.bed.gz | 878.67 KB | 9c71816424f04028ea64c27479e8f2c4 |
| ENCFF403OFG.tabix.bed.gz | 806.02 KB | edc46bd1390f39e45721ddbc91f15006 |
| ENCFF403OFG.tabix.bed.gz.tbi | 257.34 KB | b81609fa420715ac1ee730ce625419f4 |
| genomic_resource.yaml | 2.31 KB | 077cc3d352c73df652ca4a63d5a9334b |
| statistics/ |