Resource
| Id | DNase-seq/ENCSR386BOX |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR386BOX [biosample_summary="Homo sapiens activated naive CD4-positive, alpha-beta T cell male adult (48 years) treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (48 years) treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours 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 {ENCFF057ECO|/files/ENCFF057ECO/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) 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-encode4/}) |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR386BOX | float |
DNase-seq_ENCSR386BOX |
DNase-seq ENCSR386BOX [biosample_summary="Homo sapiens activated naive CD4-positive, alpha-beta T cell male adult (48 years) treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours"]
|
 |
[0.0497, 23.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 14775658 | 0.46% | 71759 |
| chr1 | 1459750 | 0.59% | 6988 |
| chr2 | 1067852 | 0.44% | 5206 |
| chr3 | 845958 | 0.43% | 4063 |
| chr4 | 562094 | 0.30% | 2734 |
| chr5 | 699950 | 0.39% | 3403 |
| chr6 | 864944 | 0.51% | 4165 |
| chr7 | 684106 | 0.43% | 3380 |
| chr8 | 604527 | 0.42% | 2964 |
| chr9 | 620696 | 0.45% | 2993 |
| chr10 | 684807 | 0.51% | 3334 |
| chr11 | 749132 | 0.55% | 3675 |
| chr12 | 756540 | 0.57% | 3639 |
| chr13 | 316175 | 0.28% | 1540 |
| chr14 | 500280 | 0.47% | 2421 |
| chr15 | 501855 | 0.49% | 2485 |
| chr16 | 578079 | 0.64% | 2822 |
| chr17 | 828801 | 1.00% | 3979 |
| chr18 | 255585 | 0.32% | 1236 |
| chr19 | 846281 | 1.44% | 4011 |
| chr20 | 395862 | 0.61% | 1999 |
| chr21 | 177437 | 0.38% | 886 |
| chr22 | 342075 | 0.67% | 1673 |
| chrX | 416449 | 0.27% | 2078 |
| chrY | 16423 | 0.03% | 85 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 71759 | 1 | 1080 | 205.91 | 200 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF660AEY.bed.gz | 787.37 KB | 8b16ae16545377f9ad1d69dc48a1c8f6 |
| ENCFF660AEY.tabix.bed.gz | 725.16 KB | d2a6ac615d1eab4ea1c61df0719ad4a8 |
| ENCFF660AEY.tabix.bed.gz.tbi | 297.67 KB | c67fe794e3e5a3a66deab058b4f41975 |
| genomic_resource.yaml | 2.61 KB | 1613d76c22721c56ca00e4f778bd4d4a |
| statistics/ |