Resource
| Id | DNase-seq/ENCSR000EJK |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR000EJK [biosample_summary="Homo sapiens GM19239"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: peaks audit_internal_action: Released analysis {ENCAN834TCD|/analyses/ENCAN834TCD/} has in progress subobject document {0e4f8198-1d17-4f77-8c62-1b853bb43098|/documents/0e4f8198-1d17-4f77-8c62-1b853bb43098/} 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 {ENCFF898IKW|/files/ENCFF898IKW/} 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_ENCSR000EJK | float |
DNase-seq_ENCSR000EJK |
DNase-seq ENCSR000EJK [biosample_summary="Homo sapiens GM19239"]
|
 |
[0.153, 17.9] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 9121145 | 0.28% | 51452 |
| chr1 | 877880 | 0.35% | 4921 |
| chr2 | 668321 | 0.28% | 3827 |
| chr3 | 538905 | 0.27% | 3052 |
| chr4 | 366609 | 0.19% | 2079 |
| chr5 | 433632 | 0.24% | 2502 |
| chr6 | 503974 | 0.30% | 2863 |
| chr7 | 432689 | 0.27% | 2456 |
| chr8 | 377071 | 0.26% | 2182 |
| chr9 | 387220 | 0.28% | 2187 |
| chr10 | 427086 | 0.32% | 2418 |
| chr11 | 483228 | 0.36% | 2700 |
| chr12 | 463709 | 0.35% | 2618 |
| chr13 | 195918 | 0.17% | 1104 |
| chr14 | 313191 | 0.29% | 1787 |
| chr15 | 306045 | 0.30% | 1715 |
| chr16 | 371964 | 0.41% | 2026 |
| chr17 | 506315 | 0.61% | 2833 |
| chr18 | 182210 | 0.23% | 1027 |
| chr19 | 510965 | 0.87% | 2735 |
| chr20 | 261151 | 0.41% | 1491 |
| chr21 | 92778 | 0.20% | 521 |
| chr22 | 219835 | 0.43% | 1225 |
| chrX | 194311 | 0.12% | 1143 |
| chrY | 6138 | 0.01% | 40 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 51452 | 1 | 702 | 177.27 | 179 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF801NEP.bed.gz | 547.51 KB | e12b023d43d9152e385a44b894e085da |
| ENCFF801NEP.tabix.bed.gz | 495.42 KB | d607426669474fd2d62dd1e00fb91d52 |
| ENCFF801NEP.tabix.bed.gz.tbi | 265.2 KB | 8371a1081acb0e1030457069c8451f46 |
| genomic_resource.yaml | 2.13 KB | 49d49ac02544c18e6e7d23cd4a6c8a49 |
| statistics/ |