Resource
| Id | DNase-seq/ENCSR001QTZ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR001QTZ [biosample_summary="Homo sapiens with mild cognitive impairment; dorsolateral prefrontal cortex 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 {ENCFF884NRT|/files/ENCFF884NRT/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.37. 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_ENCSR001QTZ | float |
DNase-seq_ENCSR001QTZ |
DNase-seq ENCSR001QTZ [biosample_summary="Homo sapiens with mild cognitive impairment; dorsolateral prefrontal cortex tissue female adult (90 or above years)"]
|
 |
[0.0612, 30.2] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 13966381 | 0.43% | 75815 |
| chr1 | 1245823 | 0.50% | 6772 |
| chr2 | 1196096 | 0.49% | 6497 |
| chr3 | 762788 | 0.38% | 4149 |
| chr4 | 545873 | 0.29% | 2948 |
| chr5 | 687652 | 0.38% | 3775 |
| chr6 | 694608 | 0.41% | 3770 |
| chr7 | 661546 | 0.42% | 3633 |
| chr8 | 634309 | 0.44% | 3435 |
| chr9 | 665290 | 0.48% | 3637 |
| chr10 | 776588 | 0.58% | 4197 |
| chr11 | 834770 | 0.62% | 4525 |
| chr12 | 607870 | 0.46% | 3264 |
| chr13 | 304902 | 0.27% | 1639 |
| chr14 | 433388 | 0.40% | 2405 |
| chr15 | 525384 | 0.52% | 2852 |
| chr16 | 503223 | 0.56% | 2749 |
| chr17 | 667411 | 0.80% | 3599 |
| chr18 | 273401 | 0.34% | 1525 |
| chr19 | 667359 | 1.14% | 3475 |
| chr20 | 393843 | 0.61% | 2155 |
| chr21 | 190544 | 0.41% | 1032 |
| chr22 | 386134 | 0.76% | 2097 |
| chrX | 306710 | 0.20% | 1677 |
| chrY | 869 | <0.01% | 8 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 75815 | 1 | 976 | 184.22 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF844ZIO.bed.gz | 830.41 KB | 5f62ab4aee09c030213eb2eaa51f754a |
| ENCFF844ZIO.tabix.bed.gz | 757.85 KB | b1e012100027dbd52c8049df1777d0c4 |
| ENCFF844ZIO.tabix.bed.gz.tbi | 291.52 KB | f7a76581ddc58b1e19f447119a82be8f |
| genomic_resource.yaml | 2.31 KB | 28d51b9d18625623a1762ff5241106bf |
| statistics/ |