Resource
| Id | DNase-seq/ENCSR706IDL |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR706IDL [biosample_summary="Homo sapiens midbrain tissue male adult (78 years) and male adult (84 years)"] |
| Description |
status: released biological_replicates: Rep 2 summary: male adult (84 years) male adult (78 years) output_type: peaks audit_error: 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 {ENCFF860SCX|/files/ENCFF860SCX/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.18. 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/}) audit_error: 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 {ENCFF591KQX|/files/ENCFF591KQX/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.25. 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_ENCSR706IDL | float |
DNase-seq_ENCSR706IDL |
DNase-seq ENCSR706IDL [biosample_summary="Homo sapiens midbrain tissue male adult (78 years) and male adult (84 years)"]
|
 |
[0.0093, 7.72] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 51367526 | 1.60% | 200645 |
| chr1 | 4911171 | 1.97% | 18524 |
| chr2 | 4156354 | 1.72% | 16311 |
| chr3 | 3559453 | 1.80% | 13698 |
| chr4 | 2619205 | 1.38% | 10163 |
| chr5 | 2967731 | 1.63% | 11559 |
| chr6 | 3246677 | 1.90% | 12486 |
| chr7 | 2639870 | 1.66% | 10455 |
| chr8 | 2323911 | 1.60% | 9160 |
| chr9 | 2313969 | 1.67% | 9042 |
| chr10 | 2445230 | 1.83% | 9668 |
| chr11 | 2650784 | 1.96% | 10419 |
| chr12 | 2502880 | 1.88% | 9773 |
| chr13 | 1438361 | 1.26% | 5486 |
| chr14 | 1741066 | 1.63% | 6671 |
| chr15 | 1696377 | 1.66% | 6644 |
| chr16 | 1535422 | 1.70% | 6174 |
| chr17 | 2066403 | 2.48% | 8162 |
| chr18 | 1204827 | 1.50% | 4696 |
| chr19 | 1387353 | 2.37% | 5559 |
| chr20 | 1234872 | 1.92% | 4852 |
| chr21 | 660158 | 1.41% | 2573 |
| chr22 | 847563 | 1.67% | 3452 |
| chrX | 1156966 | 0.74% | 4830 |
| chrY | 60923 | 0.11% | 288 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 200645 | 1 | 1580 | 256.01 | 220 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF740RSJ.bed.gz | 2.06 MB | 498ef60ae5dc2c273fe8c9b27cbac660 |
| ENCFF740RSJ.tabix.bed.gz | 1.97 MB | a73ae15051ebf4ebf8e7eba596cee3da |
| ENCFF740RSJ.tabix.bed.gz.tbi | 482.11 KB | 59b01ecac88bbe15ba4ffa00e1b45f2a |
| genomic_resource.yaml | 2.96 KB | 7ceba08ef182310def7556599f9cb158 |
| statistics/ |