Resource
| Id | DNase-seq/ENCSR828RNY |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR828RNY [biosample_summary="Homo sapiens renal cortex interstitium tissue male embryo (108 days)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male embryo (108 days) output_type: peaks audit_internal_action: Archived analysis {ENCAN928FPW|/analyses/ENCAN928FPW/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF664YWU|/files/ENCFF664YWU/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 31469964 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/}) audit_warning: Alignment file {ENCFF822LXI|/files/ENCFF822LXI/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 31279996 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/}) |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR828RNY | float |
DNase-seq_ENCSR828RNY |
DNase-seq ENCSR828RNY [biosample_summary="Homo sapiens renal cortex interstitium tissue male embryo (108 days)"]
|
 |
[3, 433] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 12420636 | 0.39% | 82408 |
| chr1 | 1112375 | 0.45% | 7390 |
| chr2 | 1002783 | 0.41% | 6638 |
| chr3 | 821445 | 0.41% | 5444 |
| chr4 | 674887 | 0.35% | 4477 |
| chr5 | 702249 | 0.39% | 4656 |
| chr6 | 760934 | 0.45% | 5046 |
| chr7 | 635791 | 0.40% | 4221 |
| chr8 | 576611 | 0.40% | 3824 |
| chr9 | 525381 | 0.38% | 3477 |
| chr10 | 622513 | 0.47% | 4129 |
| chr11 | 622873 | 0.46% | 4138 |
| chr12 | 604858 | 0.45% | 4015 |
| chr13 | 340364 | 0.30% | 2260 |
| chr14 | 397379 | 0.37% | 2635 |
| chr15 | 414952 | 0.41% | 2761 |
| chr16 | 376820 | 0.42% | 2499 |
| chr17 | 483528 | 0.58% | 3209 |
| chr18 | 298076 | 0.37% | 1972 |
| chr19 | 442202 | 0.75% | 2943 |
| chr20 | 310074 | 0.48% | 2061 |
| chr21 | 134842 | 0.29% | 897 |
| chr22 | 206812 | 0.41% | 1374 |
| chrX | 339387 | 0.22% | 2252 |
| chrY | 13500 | 0.02% | 90 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 82408 | 16 | 450 | 150.72 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF233MJO.bed.gz | 793.63 KB | 3eabd0c877764a9a39504c27581f832e |
| ENCFF233MJO.tabix.bed.gz | 681.08 KB | fa832e4a827728f991bbe3d1f95eba3e |
| ENCFF233MJO.tabix.bed.gz.tbi | 390.95 KB | c059b6b5e57142257615c60603f5255a |
| genomic_resource.yaml | 2.64 KB | e41fd2715a5e56a216e4d7c9d4c769b4 |
| statistics/ |