Resource
| Id | DNase-seq/ENCSR849CYU |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR849CYU [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 {ENCFF638KHD|/files/ENCFF638KHD/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.33. 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_ENCSR849CYU | float |
DNase-seq_ENCSR849CYU |
DNase-seq ENCSR849CYU [biosample_summary="Homo sapiens with mild cognitive impairment; head of caudate nucleus tissue female adult (90 or above years)"]
|
 |
[0.0296, 16.2] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 23068068 | 0.72% | 121300 |
| chr1 | 2060813 | 0.83% | 10799 |
| chr2 | 1993010 | 0.82% | 10477 |
| chr3 | 1232639 | 0.62% | 6488 |
| chr4 | 814240 | 0.43% | 4297 |
| chr5 | 1183841 | 0.65% | 6287 |
| chr6 | 1147216 | 0.67% | 6058 |
| chr7 | 1146850 | 0.72% | 6088 |
| chr8 | 1027253 | 0.71% | 5396 |
| chr9 | 952270 | 0.69% | 5027 |
| chr10 | 1330097 | 0.99% | 6974 |
| chr11 | 1261959 | 0.93% | 6593 |
| chr12 | 988639 | 0.74% | 5186 |
| chr13 | 535180 | 0.47% | 2852 |
| chr14 | 783804 | 0.73% | 4081 |
| chr15 | 900046 | 0.88% | 4701 |
| chr16 | 853499 | 0.94% | 4595 |
| chr17 | 1054720 | 1.27% | 5500 |
| chr18 | 471260 | 0.59% | 2537 |
| chr19 | 994316 | 1.70% | 5064 |
| chr20 | 755026 | 1.17% | 4004 |
| chr21 | 306165 | 0.66% | 1580 |
| chr22 | 718073 | 1.41% | 3726 |
| chrX | 555385 | 0.36% | 2976 |
| chrY | 1767 | <0.01% | 14 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 121300 | 1 | 1220 | 190.17 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF548PLG.bed.gz | 1.26 MB | 1dd7fe6cebd596804cf025d6be89a0e5 |
| ENCFF548PLG.tabix.bed.gz | 1.16 MB | fc80e5936d0bedb7a0a03fcff1c7e595 |
| ENCFF548PLG.tabix.bed.gz.tbi | 360.07 KB | 40fcd6bc284bca63eabfc37eb25be6da |
| genomic_resource.yaml | 2.28 KB | cce435a68912182fc11efb8e4a191e10 |
| statistics/ |