Resource
| Id | DNase-seq/ENCSR896LMT |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR896LMT [biosample_summary="Homo sapiens posterior cingulate gyrus tissue female adult (90 or above years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (90 or above years) output_type: peaks 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 {ENCFF242VNV|/files/ENCFF242VNV/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.29. 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-encode4/}) |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR896LMT | float |
DNase-seq_ENCSR896LMT |
DNase-seq ENCSR896LMT [biosample_summary="Homo sapiens posterior cingulate gyrus tissue female adult (90 or above years)"]
|
 |
[0.0624, 12] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 14354893 | 0.45% | 75566 |
| chr1 | 1244221 | 0.50% | 6555 |
| chr2 | 1296359 | 0.54% | 6826 |
| chr3 | 770447 | 0.39% | 4059 |
| chr4 | 496205 | 0.26% | 2544 |
| chr5 | 686826 | 0.38% | 3691 |
| chr6 | 554742 | 0.32% | 3016 |
| chr7 | 746655 | 0.47% | 3950 |
| chr8 | 668563 | 0.46% | 3485 |
| chr9 | 703525 | 0.51% | 3613 |
| chr10 | 810080 | 0.61% | 4265 |
| chr11 | 789710 | 0.58% | 4191 |
| chr12 | 579627 | 0.43% | 3065 |
| chr13 | 285725 | 0.25% | 1528 |
| chr14 | 529060 | 0.49% | 2732 |
| chr15 | 515173 | 0.51% | 2782 |
| chr16 | 567564 | 0.63% | 2980 |
| chr17 | 784374 | 0.94% | 4122 |
| chr18 | 247663 | 0.31% | 1323 |
| chr19 | 637588 | 1.09% | 3217 |
| chr20 | 446701 | 0.69% | 2393 |
| chr21 | 194573 | 0.42% | 1049 |
| chr22 | 533332 | 1.05% | 2777 |
| chrX | 265699 | 0.17% | 1399 |
| chrY | 481 | <0.01% | 4 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 75566 | 1 | 1020 | 189.96 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF338NXN.bed.gz | 786.39 KB | 9acba9e59bf340d978ef2e961c6ebabd |
| ENCFF338NXN.tabix.bed.gz | 719.3 KB | 033c510c360a09a0a1c34ec0f4de701c |
| ENCFF338NXN.tabix.bed.gz.tbi | 245.68 KB | 646e4e96d47aaf0c446451851cdf0b9c |
| genomic_resource.yaml | 2.12 KB | 9847e0b8a28a0eaa3000bc7cdb731331 |
| statistics/ |