Resource
| Id | DNase-seq/ENCSR037PIU |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR037PIU [biosample_summary="Homo sapiens with Cognitive impairment, Alzheimer''s disease; posterior cingulate gyrus tissue male adult (80 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (80 years) with Cognitive impairment, 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 {ENCFF845QKE|/files/ENCFF845QKE/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.25. 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_ENCSR037PIU | float |
DNase-seq_ENCSR037PIU |
DNase-seq ENCSR037PIU [biosample_summary="Homo sapiens with Cognitive impairment, Alzheimer''s disease; posterior cingulate gyrus tissue male adult (80 years)"]
|
 |
[0.0538, 12.4] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 15787456 | 0.49% | 83018 |
| chr1 | 1538993 | 0.62% | 7989 |
| chr2 | 1188735 | 0.49% | 6329 |
| chr3 | 976362 | 0.49% | 5208 |
| chr4 | 654790 | 0.34% | 3521 |
| chr5 | 843696 | 0.46% | 4533 |
| chr6 | 849114 | 0.50% | 4502 |
| chr7 | 785689 | 0.49% | 4177 |
| chr8 | 674382 | 0.46% | 3593 |
| chr9 | 685803 | 0.50% | 3590 |
| chr10 | 728420 | 0.54% | 3836 |
| chr11 | 894919 | 0.66% | 4629 |
| chr12 | 778985 | 0.58% | 4085 |
| chr13 | 338435 | 0.30% | 1819 |
| chr14 | 516502 | 0.48% | 2710 |
| chr15 | 527072 | 0.52% | 2780 |
| chr16 | 592751 | 0.66% | 3065 |
| chr17 | 760122 | 0.91% | 3901 |
| chr18 | 302061 | 0.38% | 1658 |
| chr19 | 728325 | 1.24% | 3549 |
| chr20 | 460927 | 0.72% | 2417 |
| chr21 | 171180 | 0.37% | 907 |
| chr22 | 355065 | 0.70% | 1850 |
| chrX | 414012 | 0.27% | 2252 |
| chrY | 21116 | 0.04% | 118 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 83018 | 1 | 780 | 190.17 | 199 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF763XXP.bed.gz | 911.87 KB | 3416818c48c5849e0f82924a0179f453 |
| ENCFF763XXP.tabix.bed.gz | 825.17 KB | 6bf39dc7d968c2209d04d95ac8666e89 |
| ENCFF763XXP.tabix.bed.gz.tbi | 402.99 KB | dd14d700901a18104a9d6bcc5319a98f |
| genomic_resource.yaml | 2.31 KB | 795091b38dfd60afdfe656b4fe163f0c |
| statistics/ |