Resource
| Id | DNase-seq/ENCSR809CEA |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR809CEA [biosample_summary="Homo sapiens H4"] |
| Description |
status: released biological_replicates: Rep 2 summary: 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 {ENCFF522QNO|/files/ENCFF522QNO/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.28. 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 {ENCFF224DKF|/files/ENCFF224DKF/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.26. 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_ENCSR809CEA | float |
DNase-seq_ENCSR809CEA |
DNase-seq ENCSR809CEA [biosample_summary="Homo sapiens H4"]
|
 |
[0.0229, 24.3] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 26220350 | 0.81% | 138059 |
| chr1 | 2329522 | 0.94% | 12260 |
| chr2 | 2032832 | 0.84% | 10745 |
| chr3 | 1706673 | 0.86% | 8983 |
| chr4 | 1443026 | 0.76% | 7736 |
| chr5 | 1582222 | 0.87% | 8330 |
| chr6 | 1530713 | 0.90% | 8040 |
| chr7 | 1587835 | 1.00% | 8385 |
| chr8 | 1271803 | 0.88% | 6754 |
| chr9 | 1044817 | 0.75% | 5494 |
| chr10 | 1208508 | 0.90% | 6412 |
| chr11 | 1304557 | 0.97% | 6776 |
| chr12 | 1288458 | 0.97% | 6799 |
| chr13 | 640872 | 0.56% | 3452 |
| chr14 | 828322 | 0.77% | 4369 |
| chr15 | 810260 | 0.79% | 4263 |
| chr16 | 794666 | 0.88% | 4161 |
| chr17 | 1063157 | 1.28% | 5471 |
| chr18 | 617260 | 0.77% | 3281 |
| chr19 | 854398 | 1.46% | 4264 |
| chr20 | 635874 | 0.99% | 3336 |
| chr21 | 319422 | 0.68% | 1673 |
| chr22 | 400304 | 0.79% | 2090 |
| chrX | 881242 | 0.56% | 4743 |
| chrY | 43607 | 0.08% | 242 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 138059 | 1 | 1000 | 189.92 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF299PRU.bed.gz | 1.5 MB | f61d39db331eadc7d12e5b7ba1c8e3f8 |
| ENCFF299PRU.tabix.bed.gz | 1.37 MB | 42c28a8dfceefdb298666fa012941207 |
| ENCFF299PRU.tabix.bed.gz.tbi | 551.72 KB | ca2ab42aabcf7c576e979aef68f019d6 |
| genomic_resource.yaml | 2.75 KB | a16c5d0f56aa99eb74d8a9c75567ca04 |
| statistics/ |