Resource
| Id | DNase-seq/ENCSR820XRX |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR820XRX [biosample_summary="Homo sapiens brain tissue female embryo (105 days)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female embryo (105 days) output_type: peaks audit_internal_action: Archived analysis {ENCAN513XIQ|/analyses/ENCAN513XIQ/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF343KQV|/files/ENCFF343KQV/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 39967113 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 {ENCFF424HKL|/files/ENCFF424HKL/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 39734188 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_ENCSR820XRX | float |
DNase-seq_ENCSR820XRX |
DNase-seq ENCSR820XRX [biosample_summary="Homo sapiens brain tissue female embryo (105 days)"]
|
 |
[3, 1.73e+03] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 20526818 | 0.64% | 136585 |
| chr1 | 1751011 | 0.70% | 11654 |
| chr2 | 1735315 | 0.72% | 11541 |
| chr3 | 1434748 | 0.72% | 9548 |
| chr4 | 1179135 | 0.62% | 7845 |
| chr5 | 1254416 | 0.69% | 8348 |
| chr6 | 1250948 | 0.73% | 8316 |
| chr7 | 1097783 | 0.69% | 7306 |
| chr8 | 1034555 | 0.71% | 6892 |
| chr9 | 836046 | 0.60% | 5565 |
| chr10 | 963546 | 0.72% | 6409 |
| chr11 | 1023543 | 0.76% | 6811 |
| chr12 | 986648 | 0.74% | 6563 |
| chr13 | 632075 | 0.55% | 4209 |
| chr14 | 661235 | 0.62% | 4401 |
| chr15 | 601198 | 0.59% | 3999 |
| chr16 | 621144 | 0.69% | 4130 |
| chr17 | 715531 | 0.86% | 4761 |
| chr18 | 527670 | 0.66% | 3510 |
| chr19 | 509314 | 0.87% | 3393 |
| chr20 | 517160 | 0.80% | 3442 |
| chr21 | 231000 | 0.49% | 1533 |
| chr22 | 309496 | 0.61% | 2060 |
| chrX | 623025 | 0.40% | 4147 |
| chrY | 30276 | 0.05% | 202 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 136585 | 6 | 424 | 150.29 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF693LCL.bed.gz | 1.29 MB | 3a5cbf5cb3cb9b3ac2672e0f8974f42a |
| ENCFF693LCL.tabix.bed.gz | 1.11 MB | fce338acc12b055aec52afc393d8d398 |
| ENCFF693LCL.tabix.bed.gz.tbi | 604.89 KB | 64cd7dd400361fa78654cac0ef70cf53 |
| genomic_resource.yaml | 2.58 KB | 76038e835cee0451a3660389d1b6228f |
| statistics/ |