Resource
| Id | DNase-seq/ENCSR119HXE |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR119HXE [biosample_summary="Homo sapiens stomach 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 {ENCAN118IMJ|/analyses/ENCAN118IMJ/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} audit_warning: Alignment file {ENCFF598SUR|/files/ENCFF598SUR/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 28358550 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 {ENCFF944ZDV|/files/ENCFF944ZDV/} processed by DNase-seq ENCODE3 GRCh38 pipeline ( {ENCPL001DNS|/pipelines/ENCPL001DNS/} ) for GRCh38 assembly has 28156043 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_ENCSR119HXE | float |
DNase-seq_ENCSR119HXE |
DNase-seq ENCSR119HXE [biosample_summary="Homo sapiens stomach tissue female embryo (105 days)"]
|
 |
[3, 665] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 9449881 | 0.29% | 62652 |
| chr1 | 881823 | 0.35% | 5845 |
| chr2 | 753285 | 0.31% | 4998 |
| chr3 | 613268 | 0.31% | 4070 |
| chr4 | 478283 | 0.25% | 3163 |
| chr5 | 514304 | 0.28% | 3405 |
| chr6 | 573878 | 0.34% | 3796 |
| chr7 | 486999 | 0.31% | 3228 |
| chr8 | 431052 | 0.30% | 2847 |
| chr9 | 397347 | 0.29% | 2635 |
| chr10 | 443236 | 0.33% | 2946 |
| chr11 | 473551 | 0.35% | 3141 |
| chr12 | 468367 | 0.35% | 3109 |
| chr13 | 241532 | 0.21% | 1602 |
| chr14 | 308264 | 0.29% | 2037 |
| chr15 | 298388 | 0.29% | 1978 |
| chr16 | 302695 | 0.34% | 2012 |
| chr17 | 414433 | 0.50% | 2754 |
| chr18 | 200757 | 0.25% | 1330 |
| chr19 | 394086 | 0.67% | 2622 |
| chr20 | 241449 | 0.37% | 1606 |
| chr21 | 100242 | 0.21% | 665 |
| chr22 | 167007 | 0.33% | 1110 |
| chrX | 264885 | 0.17% | 1748 |
| chrY | 750 | <0.01% | 5 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 62652 | 8 | 450 | 150.83 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF694LGV.bed.gz | 604.77 KB | 7fa3117de1f6fdaed7f682c244aaa9b9 |
| ENCFF694LGV.tabix.bed.gz | 518.36 KB | 20286aa31dce03e50fb36da15b0b8bf9 |
| ENCFF694LGV.tabix.bed.gz.tbi | 305.22 KB | b2550a694935840292ae382f96fc152c |
| genomic_resource.yaml | 2.59 KB | 72c88a207e539fe48ea836a09bf1bcc9 |
| statistics/ |