Resource
| Id | DNase-seq/ENCSR650FLQ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR650FLQ [biosample_summary="Homo sapiens upper lobe of left lung tissue male adult (54 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (54 years) output_type: peaks audit_internal_action: Archived analysis {ENCAN628FDM|/analyses/ENCAN628FDM/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} 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 {ENCFF729TER|/files/ENCFF729TER/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL202DNS|/pipelines/ENCPL202DNS/}) 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/}) |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR650FLQ | float |
DNase-seq_ENCSR650FLQ |
DNase-seq ENCSR650FLQ [biosample_summary="Homo sapiens upper lobe of left lung tissue male adult (54 years)"]
|
 |
[8, 8.75e+03] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 10073735 | 0.31% | 67092 |
| chr1 | 1011762 | 0.41% | 6744 |
| chr2 | 731725 | 0.30% | 4869 |
| chr3 | 612834 | 0.31% | 4082 |
| chr4 | 404823 | 0.21% | 2696 |
| chr5 | 486658 | 0.27% | 3239 |
| chr6 | 561796 | 0.33% | 3739 |
| chr7 | 476157 | 0.30% | 3169 |
| chr8 | 422412 | 0.29% | 2815 |
| chr9 | 432118 | 0.31% | 2876 |
| chr10 | 474057 | 0.35% | 3158 |
| chr11 | 533539 | 0.39% | 3551 |
| chr12 | 486575 | 0.37% | 3241 |
| chr13 | 213103 | 0.19% | 1420 |
| chr14 | 326131 | 0.30% | 2173 |
| chr15 | 338210 | 0.33% | 2252 |
| chr16 | 403266 | 0.45% | 2687 |
| chr17 | 561471 | 0.67% | 3742 |
| chr18 | 188210 | 0.23% | 1253 |
| chr19 | 489520 | 0.84% | 3263 |
| chr20 | 289442 | 0.45% | 1927 |
| chr21 | 120701 | 0.26% | 804 |
| chr22 | 222900 | 0.44% | 1485 |
| chrX | 272579 | 0.17% | 1815 |
| chrY | 13746 | 0.02% | 92 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 67092 | 46 | 300 | 150.15 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF984SJC.bed.gz | 671.72 KB | 83723ff470da429ff71efad2ea5092c6 |
| ENCFF984SJC.tabix.bed.gz | 572.56 KB | 4d2b024fa089d589168470c81aa511b7 |
| ENCFF984SJC.tabix.bed.gz.tbi | 323.16 KB | 6a72d85e56289dbcdeec6e9bc03eb2f9 |
| genomic_resource.yaml | 2.23 KB | 0dbb35881e5bc9e5a879a6ddd4cabaeb |
| statistics/ |