Resource
| Id | DNase-seq/ENCSR656QYL |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR656QYL [biosample_summary="Homo sapiens renal cortex interstitium tissue female embryo (103 days)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female embryo (103 days) 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 {ENCFF718QTM|/files/ENCFF718QTM/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.35. 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_ENCSR656QYL | float |
DNase-seq_ENCSR656QYL |
DNase-seq ENCSR656QYL [biosample_summary="Homo sapiens renal cortex interstitium tissue female embryo (103 days)"]
|
 |
[0.164, 21.5] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 15152841 | 0.47% | 83546 |
| chr1 | 1377122 | 0.55% | 7531 |
| chr2 | 1202428 | 0.50% | 6633 |
| chr3 | 993574 | 0.50% | 5548 |
| chr4 | 821291 | 0.43% | 4543 |
| chr5 | 844456 | 0.47% | 4698 |
| chr6 | 925733 | 0.54% | 5044 |
| chr7 | 770984 | 0.48% | 4341 |
| chr8 | 694605 | 0.48% | 3857 |
| chr9 | 637365 | 0.46% | 3468 |
| chr10 | 738510 | 0.55% | 4122 |
| chr11 | 780350 | 0.58% | 4315 |
| chr12 | 770145 | 0.58% | 4211 |
| chr13 | 410305 | 0.36% | 2301 |
| chr14 | 481079 | 0.45% | 2609 |
| chr15 | 488747 | 0.48% | 2699 |
| chr16 | 478481 | 0.53% | 2661 |
| chr17 | 602222 | 0.72% | 3293 |
| chr18 | 362141 | 0.45% | 2028 |
| chr19 | 558153 | 0.95% | 2887 |
| chr20 | 380753 | 0.59% | 2103 |
| chr21 | 168889 | 0.36% | 924 |
| chr22 | 247352 | 0.49% | 1375 |
| chrX | 417874 | 0.27% | 2353 |
| chrY | 282 | <0.01% | 2 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 83546 | 3 | 818 | 181.37 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF352SPO.bed.gz | 884.56 KB | 39a6b3fc882f9fa0aac94ff8e8e7806d |
| ENCFF352SPO.tabix.bed.gz | 793.17 KB | 300af7a49db6b51b9a428ebb2996dca4 |
| ENCFF352SPO.tabix.bed.gz.tbi | 421.52 KB | b0ed5cf2dad483c557066b3523c14c69 |
| genomic_resource.yaml | 2.09 KB | c7ec6eb4975de26062c1ac78e64aa1bd |
| statistics/ |