Resource
| Id | DNase-seq/ENCSR649MJI |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR649MJI [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 {ENCFF138DUZ|/files/ENCFF138DUZ/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.32. 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_ENCSR649MJI | float |
DNase-seq_ENCSR649MJI |
DNase-seq ENCSR649MJI [biosample_summary="Homo sapiens with mild cognitive impairment; head of caudate nucleus tissue female adult (90 or above years)"]
|
 |
[0.138, 18.1] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 5571099 | 0.17% | 30186 |
| chr1 | 559268 | 0.22% | 3028 |
| chr2 | 371519 | 0.15% | 2002 |
| chr3 | 311037 | 0.16% | 1683 |
| chr4 | 200331 | 0.11% | 1096 |
| chr5 | 255278 | 0.14% | 1372 |
| chr6 | 289843 | 0.17% | 1592 |
| chr7 | 257017 | 0.16% | 1395 |
| chr8 | 207789 | 0.14% | 1141 |
| chr9 | 248418 | 0.18% | 1344 |
| chr10 | 234190 | 0.18% | 1296 |
| chr11 | 318185 | 0.24% | 1772 |
| chr12 | 276761 | 0.21% | 1495 |
| chr13 | 104591 | 0.09% | 568 |
| chr14 | 181780 | 0.17% | 979 |
| chr15 | 181071 | 0.18% | 1004 |
| chr16 | 242383 | 0.27% | 1280 |
| chr17 | 335745 | 0.40% | 1817 |
| chr18 | 86932 | 0.11% | 488 |
| chr19 | 408461 | 0.70% | 2101 |
| chr20 | 156329 | 0.24% | 879 |
| chr21 | 56378 | 0.12% | 313 |
| chr22 | 144543 | 0.28% | 787 |
| chrX | 142978 | 0.09% | 751 |
| chrY | 272 | <0.01% | 3 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 30186 | 4 | 820 | 184.56 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF707POR.bed.gz | 336.8 KB | 59cbd03818e849b88877777274de994a |
| ENCFF707POR.tabix.bed.gz | 304.93 KB | b33542a7d2c7ee142e05c5883226d1ad |
| ENCFF707POR.tabix.bed.gz.tbi | 176.51 KB | 9875bdf76f0709de0c2472db7be8b6a9 |
| genomic_resource.yaml | 2.29 KB | fa18e78b6e783711b5f30fcc09130b2a |
| statistics/ |