Resource
| Id | DNase-seq/ENCSR311EEL |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR311EEL [biosample_summary="Homo sapiens with mild cognitive impairment; head of caudate nucleus 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 {ENCFF764MTB|/files/ENCFF764MTB/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.36. 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_ENCSR311EEL | float |
DNase-seq_ENCSR311EEL |
DNase-seq ENCSR311EEL [biosample_summary="Homo sapiens with mild cognitive impairment; head of caudate nucleus tissue female adult (90 or above years)"]
|
 |
[0.0501, 18.4] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 18153135 | 0.56% | 95639 |
| chr1 | 1651360 | 0.66% | 8681 |
| chr2 | 1626562 | 0.67% | 8561 |
| chr3 | 870807 | 0.44% | 4594 |
| chr4 | 635615 | 0.33% | 3327 |
| chr5 | 909875 | 0.50% | 4825 |
| chr6 | 779942 | 0.46% | 4188 |
| chr7 | 914103 | 0.57% | 4848 |
| chr8 | 803166 | 0.55% | 4245 |
| chr9 | 833646 | 0.60% | 4330 |
| chr10 | 972695 | 0.73% | 5134 |
| chr11 | 1115453 | 0.83% | 5781 |
| chr12 | 745094 | 0.56% | 3923 |
| chr13 | 362763 | 0.32% | 1926 |
| chr14 | 605740 | 0.57% | 3242 |
| chr15 | 625501 | 0.61% | 3321 |
| chr16 | 705915 | 0.78% | 3726 |
| chr17 | 986021 | 1.18% | 5253 |
| chr18 | 326003 | 0.41% | 1762 |
| chr19 | 854043 | 1.46% | 4361 |
| chr20 | 553251 | 0.86% | 2973 |
| chr21 | 305490 | 0.65% | 1563 |
| chr22 | 606105 | 1.19% | 3177 |
| chrX | 362944 | 0.23% | 1889 |
| chrY | 1041 | <0.01% | 9 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 95639 | 1 | 980 | 189.81 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF306FTN.bed.gz | 1013.97 KB | 03a6c90cbffef423df2c92919f9e328e |
| ENCFF306FTN.tabix.bed.gz | 928.6 KB | 52277ef9e89f65a9dfbfb20d2bb7efae |
| ENCFF306FTN.tabix.bed.gz.tbi | 299.41 KB | 1dd58dbc0a2785c81185c701ae514938 |
| genomic_resource.yaml | 2.28 KB | ac7cb1f2064b9d06c56e92288d81bbcf |
| statistics/ |