Resource
| Id | DNase-seq/ENCSR136KEL |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR136KEL [biosample_summary="Homo sapiens kidney glomerular epithelial cell male adult (43 years) and male adult (62 years)"] |
| Description |
status: released biological_replicates: Rep 2 summary: male adult (43 years) male adult (62 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 {ENCFF789WYX|/files/ENCFF789WYX/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.17. 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_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 {ENCFF925RDJ|/files/ENCFF925RDJ/} 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_ENCSR136KEL | float |
DNase-seq_ENCSR136KEL |
DNase-seq ENCSR136KEL [biosample_summary="Homo sapiens kidney glomerular epithelial cell male adult (43 years) and male adult (62 years)"]
|
 |
[0.0338, 17.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 38446489 | 1.19% | 196798 |
| chr1 | 3552074 | 1.43% | 18116 |
| chr2 | 3212930 | 1.33% | 16452 |
| chr3 | 2702936 | 1.36% | 13722 |
| chr4 | 2100297 | 1.10% | 10818 |
| chr5 | 2244005 | 1.24% | 11519 |
| chr6 | 2453163 | 1.44% | 12414 |
| chr7 | 1955456 | 1.23% | 10028 |
| chr8 | 1842926 | 1.27% | 9456 |
| chr9 | 1628343 | 1.18% | 8394 |
| chr10 | 1860004 | 1.39% | 9527 |
| chr11 | 1923147 | 1.42% | 9817 |
| chr12 | 1888971 | 1.42% | 9666 |
| chr13 | 1068253 | 0.93% | 5477 |
| chr14 | 1212206 | 1.13% | 6193 |
| chr15 | 1236018 | 1.21% | 6321 |
| chr16 | 1117543 | 1.24% | 5715 |
| chr17 | 1457422 | 1.75% | 7399 |
| chr18 | 923289 | 1.15% | 4806 |
| chr19 | 1082160 | 1.85% | 5370 |
| chr20 | 919916 | 1.43% | 4728 |
| chr21 | 402649 | 0.86% | 2085 |
| chr22 | 590740 | 1.16% | 3059 |
| chrX | 1001087 | 0.64% | 5325 |
| chrY | 70954 | 0.12% | 391 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 196798 | 1 | 820 | 195.36 | 190 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF718KQK.bed.gz | 2.1 MB | 2f57fc7f2348a89906fcce6f0cc5a475 |
| ENCFF718KQK.tabix.bed.gz | 1.92 MB | f8e1e279ae25aa4583fcb6dbc4a99638 |
| ENCFF718KQK.tabix.bed.gz.tbi | 639.62 KB | 0cc41b4e1f0affb88b10882fdc7e4c40 |
| genomic_resource.yaml | 3.02 KB | e09cd87c4e2a003bc1ed082203e96c2c |
| statistics/ |