Resource
| Id | DNase-seq/ENCSR058VBM |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR058VBM [biosample_summary="Homo sapiens upper lobe of left lung tissue male adult (37 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (37 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 {ENCFF557TCY|/files/ENCFF557TCY/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.33. 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_ENCSR058VBM | float |
DNase-seq_ENCSR058VBM |
DNase-seq ENCSR058VBM [biosample_summary="Homo sapiens upper lobe of left lung tissue male adult (37 years)"]
|
 |
[0.0465, 19.7] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 19120848 | 0.59% | 102177 |
| chr1 | 1851907 | 0.74% | 9827 |
| chr2 | 1609076 | 0.66% | 8563 |
| chr3 | 1135879 | 0.57% | 6104 |
| chr4 | 669430 | 0.35% | 3592 |
| chr5 | 891696 | 0.49% | 4799 |
| chr6 | 1021456 | 0.60% | 5494 |
| chr7 | 873104 | 0.55% | 4725 |
| chr8 | 755145 | 0.52% | 4035 |
| chr9 | 809398 | 0.58% | 4345 |
| chr10 | 990607 | 0.74% | 5384 |
| chr11 | 1038253 | 0.77% | 5508 |
| chr12 | 851320 | 0.64% | 4486 |
| chr13 | 375915 | 0.33% | 2044 |
| chr14 | 642877 | 0.60% | 3447 |
| chr15 | 692291 | 0.68% | 3729 |
| chr16 | 707663 | 0.78% | 3791 |
| chr17 | 1048077 | 1.26% | 5526 |
| chr18 | 386176 | 0.48% | 2122 |
| chr19 | 934442 | 1.59% | 4787 |
| chr20 | 592366 | 0.92% | 3162 |
| chr21 | 256038 | 0.55% | 1348 |
| chr22 | 514199 | 1.01% | 2750 |
| chrX | 455413 | 0.29% | 2510 |
| chrY | 18120 | 0.03% | 99 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 102177 | 1 | 860 | 187.13 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF993CLU.bed.gz | 1.08 MB | 07052e83a123014d0c3d77c8f3032308 |
| ENCFF993CLU.tabix.bed.gz | 1012.25 KB | 00877c0ef6976515b53d01d476b46e5d |
| ENCFF993CLU.tabix.bed.gz.tbi | 349.5 KB | f3d77de2f67849823f7f036e29d8cb51 |
| genomic_resource.yaml | 2.07 KB | 4ba2bfb83a8275566916bbd561552d9b |
| statistics/ |