Resource
| Id | DNase-seq/ENCSR258POP |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR258POP [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 {ENCFF100WCS|/files/ENCFF100WCS/} 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_ENCSR258POP | float |
DNase-seq_ENCSR258POP |
DNase-seq ENCSR258POP [biosample_summary="Homo sapiens with mild cognitive impairment; posterior cingulate gyrus tissue female adult (90 or above years)"]
|
 |
[0.0636, 19.4] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 15448315 | 0.48% | 82643 |
| chr1 | 1483606 | 0.60% | 7864 |
| chr2 | 1223940 | 0.51% | 6658 |
| chr3 | 880251 | 0.44% | 4706 |
| chr4 | 575684 | 0.30% | 3044 |
| chr5 | 753667 | 0.42% | 4036 |
| chr6 | 746222 | 0.44% | 4007 |
| chr7 | 745449 | 0.47% | 4072 |
| chr8 | 712083 | 0.49% | 3829 |
| chr9 | 691292 | 0.50% | 3702 |
| chr10 | 782242 | 0.58% | 4211 |
| chr11 | 903065 | 0.67% | 4826 |
| chr12 | 699203 | 0.52% | 3718 |
| chr13 | 295047 | 0.26% | 1587 |
| chr14 | 519560 | 0.49% | 2751 |
| chr15 | 554661 | 0.54% | 2971 |
| chr16 | 581725 | 0.64% | 3132 |
| chr17 | 805802 | 0.97% | 4268 |
| chr18 | 296792 | 0.37% | 1621 |
| chr19 | 765210 | 1.31% | 3886 |
| chr20 | 457506 | 0.71% | 2513 |
| chr21 | 167645 | 0.36% | 924 |
| chr22 | 468875 | 0.92% | 2526 |
| chrX | 338266 | 0.22% | 1787 |
| chrY | 522 | <0.01% | 4 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 82643 | 1 | 879 | 186.93 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF592VFA.bed.gz | 905.31 KB | 1792764c74486fbd2c26398cff634ed5 |
| ENCFF592VFA.tabix.bed.gz | 825.55 KB | a1fc97eee994e619186989e6e32932e6 |
| ENCFF592VFA.tabix.bed.gz.tbi | 313.69 KB | a7f482204a12caa22d13c39c6f99249d |
| genomic_resource.yaml | 2.29 KB | 743a1e24b1a63bbc805dd23308f1b019 |
| statistics/ |