Resource
| Id | DNase-seq/ENCSR365NDK |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR365NDK [biosample_summary="Homo sapiens ovary tissue female adult (51 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (51 years) output_type: peaks audit_internal_action: Archived analysis {ENCAN784ZNC|/analyses/ENCAN784ZNC/} 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 {ENCFF492NLF|/files/ENCFF492NLF/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL202DNS|/pipelines/ENCPL202DNS/}) for GRCh38 assembly have a SPOT1 score of 0.33. 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_ENCSR365NDK | float |
DNase-seq_ENCSR365NDK |
DNase-seq ENCSR365NDK [biosample_summary="Homo sapiens ovary tissue female adult (51 years)"]
|
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[6, 5.82e+03] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 3485647 | 0.11% | 23197 |
| chr1 | 366917 | 0.15% | 2441 |
| chr2 | 247302 | 0.10% | 1645 |
| chr3 | 207312 | 0.10% | 1380 |
| chr4 | 132310 | 0.07% | 879 |
| chr5 | 157773 | 0.09% | 1049 |
| chr6 | 188256 | 0.11% | 1255 |
| chr7 | 159273 | 0.10% | 1060 |
| chr8 | 147052 | 0.10% | 978 |
| chr9 | 145350 | 0.11% | 967 |
| chr10 | 157103 | 0.12% | 1047 |
| chr11 | 193350 | 0.14% | 1287 |
| chr12 | 181404 | 0.14% | 1207 |
| chr13 | 72251 | 0.06% | 480 |
| chr14 | 111649 | 0.10% | 741 |
| chr15 | 116034 | 0.11% | 771 |
| chr16 | 137250 | 0.15% | 915 |
| chr17 | 200797 | 0.24% | 1339 |
| chr18 | 52744 | 0.07% | 351 |
| chr19 | 227976 | 0.39% | 1517 |
| chr20 | 89550 | 0.14% | 596 |
| chr21 | 34994 | 0.07% | 234 |
| chr22 | 79050 | 0.16% | 525 |
| chrX | 79500 | 0.05% | 530 |
| chrY | 450 | <0.01% | 3 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 23197 | 13 | 300 | 150.26 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF442RVC.bed.gz | 236.07 KB | 76c13d8c002918ca49ce916d1a656a00 |
| ENCFF442RVC.tabix.bed.gz | 200.71 KB | ec5356c0ab041145ff385b57ecc8ffee |
| ENCFF442RVC.tabix.bed.gz.tbi | 144.4 KB | dabf153e9e2f2561d0a2a9d1bced5704 |
| genomic_resource.yaml | 2.18 KB | 99e304a69759acf5fef73df6e14926ed |
| statistics/ |
