Resource
| Id | DNase-seq/ENCSR859LTL |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR859LTL [biosample_summary="Homo sapiens breast epithelium 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 {ENCAN940WZV|/analyses/ENCAN940WZV/} 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 {ENCFF768ZNH|/files/ENCFF768ZNH/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL202DNS|/pipelines/ENCPL202DNS/}) for GRCh38 assembly have a SPOT1 score of 0.37. 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_ENCSR859LTL | float |
DNase-seq_ENCSR859LTL |
DNase-seq ENCSR859LTL [biosample_summary="Homo sapiens breast epithelium tissue female adult (51 years)"]
|
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[7, 1.77e+04] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 12672273 | 0.39% | 84356 |
| chr1 | 1293798 | 0.52% | 8606 |
| chr2 | 974379 | 0.40% | 6480 |
| chr3 | 770964 | 0.39% | 5134 |
| chr4 | 507988 | 0.27% | 3382 |
| chr5 | 632332 | 0.35% | 4203 |
| chr6 | 714664 | 0.42% | 4760 |
| chr7 | 589823 | 0.37% | 3926 |
| chr8 | 542463 | 0.37% | 3612 |
| chr9 | 534407 | 0.39% | 3558 |
| chr10 | 601246 | 0.45% | 4010 |
| chr11 | 673885 | 0.50% | 4487 |
| chr12 | 607980 | 0.46% | 4050 |
| chr13 | 268581 | 0.23% | 1792 |
| chr14 | 407517 | 0.38% | 2713 |
| chr15 | 446286 | 0.44% | 2969 |
| chr16 | 469773 | 0.52% | 3126 |
| chr17 | 655492 | 0.79% | 4364 |
| chr18 | 256325 | 0.32% | 1706 |
| chr19 | 579913 | 0.99% | 3860 |
| chr20 | 367353 | 0.57% | 2447 |
| chr21 | 161991 | 0.35% | 1079 |
| chr22 | 297998 | 0.59% | 1982 |
| chrX | 315465 | 0.20% | 2099 |
| chrY | 1650 | <0.01% | 11 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 84356 | 1 | 450 | 150.22 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF889FYM.bed.gz | 844.02 KB | 07682b9cd41cf6f57dc6792c89b869c9 |
| ENCFF889FYM.tabix.bed.gz | 720.84 KB | 5cb519f4090c4a8c48134a3808cd3ce2 |
| ENCFF889FYM.tabix.bed.gz.tbi | 356.93 KB | 537250672db64e858246968de4f9d81b |
| genomic_resource.yaml | 2.22 KB | a16e827fe262d4aded9ecf270241cd74 |
| statistics/ |
