Resource
| Id | DNase-seq/ENCSR784GVR |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR784GVR [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 {ENCFF686LSV|/files/ENCFF686LSV/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 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_ENCSR784GVR | float |
DNase-seq_ENCSR784GVR |
DNase-seq ENCSR784GVR [biosample_summary="Homo sapiens with mild cognitive impairment; posterior cingulate gyrus tissue female adult (90 or above years)"]
|
 |
[0.0996, 14.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 8888496 | 0.28% | 49192 |
| chr1 | 893253 | 0.36% | 4943 |
| chr2 | 628259 | 0.26% | 3523 |
| chr3 | 520044 | 0.26% | 2890 |
| chr4 | 321782 | 0.17% | 1817 |
| chr5 | 431350 | 0.24% | 2436 |
| chr6 | 463551 | 0.27% | 2573 |
| chr7 | 428567 | 0.27% | 2377 |
| chr8 | 356264 | 0.25% | 1990 |
| chr9 | 404076 | 0.29% | 2243 |
| chr10 | 411414 | 0.31% | 2303 |
| chr11 | 502951 | 0.37% | 2775 |
| chr12 | 436471 | 0.33% | 2402 |
| chr13 | 173272 | 0.15% | 975 |
| chr14 | 290993 | 0.27% | 1628 |
| chr15 | 309266 | 0.30% | 1731 |
| chr16 | 356802 | 0.39% | 1935 |
| chr17 | 492178 | 0.59% | 2694 |
| chr18 | 153820 | 0.19% | 886 |
| chr19 | 526934 | 0.90% | 2703 |
| chr20 | 263604 | 0.41% | 1476 |
| chr21 | 90382 | 0.19% | 513 |
| chr22 | 210261 | 0.41% | 1168 |
| chrX | 222309 | 0.14% | 1205 |
| chrY | 693 | <0.01% | 6 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 49192 | 2 | 780 | 180.69 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF236MLS.bed.gz | 547.06 KB | 02ec736fbebb8b8a3948288aefabf331 |
| ENCFF236MLS.tabix.bed.gz | 495.85 KB | c26a1d8182e43c08a0285159cdec1d29 |
| ENCFF236MLS.tabix.bed.gz.tbi | 259.33 KB | bb849eac5fecff494f7c7c27570f4c75 |
| genomic_resource.yaml | 2.29 KB | 97d4ce5bc0a8b3a226efc2b2e96437df |
| statistics/ |