Resource
| Id | DNase-seq/ENCSR541IET |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR541IET [biosample_summary="Homo sapiens endothelial cell"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (53 years) 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 {ENCFF537CMG|/files/ENCFF537CMG/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.36. 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 {ENCFF271JOQ|/files/ENCFF271JOQ/} processed by DNase-seq ENCODE4 v3.0.0 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_ENCSR541IET | float |
DNase-seq_ENCSR541IET |
DNase-seq ENCSR541IET [biosample_summary="Homo sapiens endothelial cell"]
|
 |
[0.0488, 22.7] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 16171128 | 0.50% | 80965 |
| chr1 | 1563198 | 0.63% | 7711 |
| chr2 | 1191566 | 0.49% | 5992 |
| chr3 | 933508 | 0.47% | 4691 |
| chr4 | 685332 | 0.36% | 3416 |
| chr5 | 807418 | 0.44% | 4103 |
| chr6 | 936011 | 0.55% | 4671 |
| chr7 | 768897 | 0.48% | 3835 |
| chr8 | 702024 | 0.48% | 3520 |
| chr9 | 707955 | 0.51% | 3522 |
| chr10 | 769254 | 0.57% | 3863 |
| chr11 | 884376 | 0.65% | 4469 |
| chr12 | 777499 | 0.58% | 3884 |
| chr13 | 366129 | 0.32% | 1837 |
| chr14 | 518373 | 0.48% | 2566 |
| chr15 | 542154 | 0.53% | 2735 |
| chr16 | 593938 | 0.66% | 3001 |
| chr17 | 797775 | 0.96% | 3977 |
| chr18 | 332717 | 0.41% | 1651 |
| chr19 | 790362 | 1.35% | 3864 |
| chr20 | 454273 | 0.70% | 2302 |
| chr21 | 185479 | 0.40% | 949 |
| chr22 | 361999 | 0.71% | 1823 |
| chrX | 483472 | 0.31% | 2491 |
| chrY | 17419 | 0.03% | 92 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 80965 | 1 | 1055 | 199.73 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF669OTS.bed.gz | 886.8 KB | 0405e4e69e31ef5c9fd6daa4e3c4fbe5 |
| ENCFF669OTS.tabix.bed.gz | 819.92 KB | d5f61114ec3f926f1a2bbc4e93f8a9c8 |
| ENCFF669OTS.tabix.bed.gz.tbi | 343.81 KB | 49330062aec396bae31ae55e1c6be680 |
| genomic_resource.yaml | 2.78 KB | bc1b9646c971dfbce22a35b572251e3a |
| statistics/ |