Resource
| Id | DNase-seq/ENCSR247IUJ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR247IUJ [biosample_summary="Homo sapiens B cell male adult (37 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (37 years) output_type: peaks audit_warning: Alignment file {ENCFF118HJV|/files/ENCFF118HJV/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ( {ENCPL848KLD|/pipelines/ENCPL848KLD/} ) for GRCh38 assembly has 25637560 mapped reads. According to ENCODE standards, conventional DNase-seq profile requires a minimum of 20 million uniquely mapped reads to generate a reliable SPOT (Signal Portion of Tags) score. The recommended value is > 50 million. For deep, foot-printing depth DNase-seq 150-200 million uniquely mapped reads are recommended. (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 {ENCFF118HJV|/files/ENCFF118HJV/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 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_ENCSR247IUJ | float |
DNase-seq_ENCSR247IUJ |
DNase-seq ENCSR247IUJ [biosample_summary="Homo sapiens B cell male adult (37 years)"]
|
 |
[0.274, 19.5] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 6398430 | 0.20% | 32556 |
| chr1 | 636443 | 0.26% | 3209 |
| chr2 | 470052 | 0.19% | 2423 |
| chr3 | 378652 | 0.19% | 1946 |
| chr4 | 253337 | 0.13% | 1291 |
| chr5 | 310256 | 0.17% | 1589 |
| chr6 | 399014 | 0.23% | 2023 |
| chr7 | 310716 | 0.19% | 1628 |
| chr8 | 254663 | 0.18% | 1320 |
| chr9 | 247606 | 0.18% | 1291 |
| chr10 | 278346 | 0.21% | 1426 |
| chr11 | 339363 | 0.25% | 1699 |
| chr12 | 341027 | 0.26% | 1699 |
| chr13 | 135940 | 0.12% | 701 |
| chr14 | 223639 | 0.21% | 1137 |
| chr15 | 200488 | 0.20% | 1022 |
| chr16 | 234604 | 0.26% | 1206 |
| chr17 | 349765 | 0.42% | 1755 |
| chr18 | 107588 | 0.13% | 551 |
| chr19 | 386562 | 0.66% | 1847 |
| chr20 | 168504 | 0.26% | 869 |
| chr21 | 69565 | 0.15% | 359 |
| chr22 | 136186 | 0.27% | 709 |
| chrX | 157845 | 0.10% | 814 |
| chrY | 8269 | 0.01% | 42 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 32556 | 1 | 760 | 196.54 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF262LZH.bed.gz | 343.24 KB | beaadb0beb8bfb7c1234cd5f0d03213b |
| ENCFF262LZH.tabix.bed.gz | 309.58 KB | f52bc57277c9f726e92db0ec5bd183e9 |
| ENCFF262LZH.tabix.bed.gz.tbi | 192.22 KB | f10ff9e3d28c17a49fdb6a309591c363 |
| genomic_resource.yaml | 2.62 KB | 84c1546fb505817640232bf86c638b05 |
| statistics/ |