Resource
| Id | DNase-seq/ENCSR885ZBV |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR885ZBV [biosample_summary="Homo sapiens with mild cognitive impairment; posterior cingulate gyrus 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 {ENCFF969PRK|/files/ENCFF969PRK/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.30. 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_ENCSR885ZBV | float |
DNase-seq_ENCSR885ZBV |
DNase-seq ENCSR885ZBV [biosample_summary="Homo sapiens with mild cognitive impairment; posterior cingulate gyrus tissue female adult (90 or above years)"]
|
 |
[0.0711, 10.2] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 11211974 | 0.35% | 60337 |
| chr1 | 1019641 | 0.41% | 5525 |
| chr2 | 872938 | 0.36% | 4736 |
| chr3 | 628001 | 0.32% | 3408 |
| chr4 | 459000 | 0.24% | 2394 |
| chr5 | 574596 | 0.32% | 3140 |
| chr6 | 547946 | 0.32% | 2955 |
| chr7 | 567251 | 0.36% | 3089 |
| chr8 | 534755 | 0.37% | 2901 |
| chr9 | 496840 | 0.36% | 2631 |
| chr10 | 590300 | 0.44% | 3181 |
| chr11 | 665634 | 0.49% | 3582 |
| chr12 | 499400 | 0.37% | 2688 |
| chr13 | 228999 | 0.20% | 1221 |
| chr14 | 389314 | 0.36% | 2051 |
| chr15 | 358270 | 0.35% | 1948 |
| chr16 | 411861 | 0.46% | 2209 |
| chr17 | 547599 | 0.66% | 2956 |
| chr18 | 218506 | 0.27% | 1200 |
| chr19 | 541874 | 0.92% | 2764 |
| chr20 | 316648 | 0.49% | 1729 |
| chr21 | 138547 | 0.30% | 770 |
| chr22 | 348447 | 0.69% | 1903 |
| chrX | 254707 | 0.16% | 1349 |
| chrY | 900 | <0.01% | 7 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 60337 | 2 | 940 | 185.82 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF061CZZ.bed.gz | 649.89 KB | 4446da508247e28b6da0ece079d9e608 |
| ENCFF061CZZ.tabix.bed.gz | 592.62 KB | 93977a562fd7df8d2f7e72966daf227c |
| ENCFF061CZZ.tabix.bed.gz.tbi | 252.56 KB | 02ffbcc317cc3b8dad1abf3095725438 |
| genomic_resource.yaml | 2.28 KB | 142d08627d7c0c69d890e21355af4cbe |
| statistics/ |