Resource
| Id | DNase-seq/ENCSR000ELJ |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR000ELJ [biosample_summary="Homo sapiens osteoblast"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: peaks audit_error: Missing footprints in ENCODE4 DNase-seq analysis {ENCAN854QFL|/analyses/ENCAN854QFL/} audit_internal_action: Released analysis {ENCAN854QFL|/analyses/ENCAN854QFL/} has in progress subobject document {be857241-de58-43f7-8dfd-5427b7e3fcdc|/documents/be857241-de58-43f7-8dfd-5427b7e3fcdc/} 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 {ENCFF602ZVM|/files/ENCFF602ZVM/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.36. 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_ENCSR000ELJ | float |
DNase-seq_ENCSR000ELJ |
DNase-seq ENCSR000ELJ [biosample_summary="Homo sapiens osteoblast"]
|
 |
[0.0315, 30.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 74718681 | 2.32% | 499767 |
| chr1 | 6813750 | 2.74% | 45237 |
| chr2 | 5577567 | 2.30% | 38066 |
| chr3 | 3969866 | 2.00% | 27507 |
| chr4 | 3110986 | 1.64% | 21672 |
| chr5 | 3491907 | 1.92% | 24192 |
| chr6 | 3402884 | 1.99% | 23690 |
| chr7 | 3722577 | 2.34% | 25143 |
| chr8 | 2916868 | 2.01% | 20162 |
| chr9 | 3430041 | 2.48% | 22511 |
| chr10 | 3452389 | 2.58% | 23205 |
| chr11 | 4313467 | 3.19% | 28108 |
| chr12 | 3297570 | 2.47% | 22375 |
| chr13 | 1538716 | 1.35% | 10996 |
| chr14 | 2365862 | 2.21% | 15632 |
| chr15 | 2219303 | 2.18% | 15093 |
| chr16 | 3141624 | 3.48% | 20205 |
| chr17 | 4448630 | 5.34% | 28139 |
| chr18 | 1288651 | 1.60% | 9146 |
| chr19 | 4554856 | 7.77% | 27689 |
| chr20 | 2212574 | 3.43% | 14543 |
| chr21 | 962301 | 2.06% | 6359 |
| chr22 | 2578753 | 5.07% | 16294 |
| chrX | 1906369 | 1.22% | 13794 |
| chrY | 1170 | <0.01% | 9 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 499767 | 3 | 820 | 149.51 | 140 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF195EHM.bed.gz | 4.82 MB | cd0520a3b3bfc8ab81de55796fc77815 |
| ENCFF195EHM.tabix.bed.gz | 4.42 MB | e8f5456549f8c083dc5008023f975548 |
| ENCFF195EHM.tabix.bed.gz.tbi | 775.39 KB | 7fc4309665b4b008f10bd079345a75ae |
| genomic_resource.yaml | 2.42 KB | 7546c038e20f5a4767f920d18d24c04a |
| statistics/ |