Resource
| Id | DNase-seq/ENCSR842KCP |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR842KCP [biosample_summary="Homo sapiens cardiac muscle cell originated from RUES2"] |
| Description |
status: released biological_replicates: Rep 1 summary: embryo output_type: peaks audit_internal_action: Archived analysis {ENCAN376MXK|/analyses/ENCAN376MXK/} 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 {ENCFF520VZX|/files/ENCFF520VZX/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL202DNS|/pipelines/ENCPL202DNS/}) for GRCh38 assembly have a SPOT1 score of 0.34. 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_ENCSR842KCP | float |
DNase-seq_ENCSR842KCP |
DNase-seq ENCSR842KCP [biosample_summary="Homo sapiens cardiac muscle cell originated from RUES2"]
|
 |
[3, 1.28e+05] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 32334006 | 1.00% | 215390 |
| chr1 | 2936774 | 1.18% | 19562 |
| chr2 | 2629713 | 1.09% | 17519 |
| chr3 | 2148121 | 1.08% | 14305 |
| chr4 | 1731566 | 0.91% | 11538 |
| chr5 | 1874060 | 1.03% | 12483 |
| chr6 | 1929677 | 1.13% | 12859 |
| chr7 | 1646621 | 1.03% | 10970 |
| chr8 | 1509265 | 1.04% | 10053 |
| chr9 | 1318230 | 0.95% | 8780 |
| chr10 | 1576052 | 1.18% | 10500 |
| chr11 | 1631880 | 1.21% | 10868 |
| chr12 | 1565243 | 1.17% | 10424 |
| chr13 | 918150 | 0.80% | 6118 |
| chr14 | 996951 | 0.93% | 6640 |
| chr15 | 1048393 | 1.03% | 6984 |
| chr16 | 1013060 | 1.12% | 6747 |
| chr17 | 1275158 | 1.53% | 8500 |
| chr18 | 793141 | 0.99% | 5281 |
| chr19 | 976463 | 1.67% | 6506 |
| chr20 | 810672 | 1.26% | 5397 |
| chr21 | 349869 | 0.75% | 2331 |
| chr22 | 554963 | 1.09% | 3697 |
| chrX | 1091734 | 0.70% | 7274 |
| chrY | 8250 | 0.01% | 54 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 215390 | 6 | 300 | 150.12 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF054OJL.bed.gz | 2.08 MB | 38b2a9f2de3a03b69aa0b1d9043ba956 |
| ENCFF054OJL.tabix.bed.gz | 1.79 MB | 9f600aff71a0f305f639b1609be0171a |
| ENCFF054OJL.tabix.bed.gz.tbi | 705.93 KB | a2af15a91741e6cba89eb700b547a31b |
| genomic_resource.yaml | 2.18 KB | e23e632ca60f637a354ec4ff175bcec0 |
| statistics/ |