Resource
| Id | DNase-seq/ENCSR856NXV |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR856NXV [biosample_summary="Homo sapiens cardiac fibroblast female embryo (94 days) and female embryo (98 days)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female embryo (94 days) female embryo (98 days) output_type: peaks audit_error: 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 {ENCFF019IAD|/files/ENCFF019IAD/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL202DNS|/pipelines/ENCPL202DNS/}) for GRCh38 assembly have a SPOT1 score of 0.23. 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/}) audit_internal_action: Archived analysis {ENCAN163IRG|/analyses/ENCAN163IRG/} has in progress subobject quality standard {encode3-dnase|/quality-standards/encode3-dnase/} |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR856NXV | float |
DNase-seq_ENCSR856NXV |
DNase-seq ENCSR856NXV [biosample_summary="Homo sapiens cardiac fibroblast female embryo (94 days) and female embryo (98 days)"]
|
 |
[2, 1.64e+05] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 42206098 | 1.31% | 281150 |
| chr1 | 3777901 | 1.52% | 25167 |
| chr2 | 3586035 | 1.48% | 23892 |
| chr3 | 2936827 | 1.48% | 19563 |
| chr4 | 2482030 | 1.30% | 16534 |
| chr5 | 2507144 | 1.38% | 16699 |
| chr6 | 2590837 | 1.52% | 17253 |
| chr7 | 2229117 | 1.40% | 14852 |
| chr8 | 2062453 | 1.42% | 13738 |
| chr9 | 1786199 | 1.29% | 11906 |
| chr10 | 2049282 | 1.53% | 13646 |
| chr11 | 2091059 | 1.55% | 13931 |
| chr12 | 2027336 | 1.52% | 13504 |
| chr13 | 1286905 | 1.13% | 8573 |
| chr14 | 1298678 | 1.21% | 8649 |
| chr15 | 1378663 | 1.35% | 9187 |
| chr16 | 1144732 | 1.27% | 7623 |
| chr17 | 1505372 | 1.81% | 10029 |
| chr18 | 1067238 | 1.33% | 7112 |
| chr19 | 1023665 | 1.75% | 6820 |
| chr20 | 987212 | 1.53% | 6571 |
| chr21 | 474430 | 1.02% | 3161 |
| chr22 | 627736 | 1.24% | 4182 |
| chrX | 1272647 | 0.82% | 8474 |
| chrY | 12600 | 0.02% | 84 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 281150 | 13 | 450 | 150.12 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF396GMA.bed.gz | 2.66 MB | 023fc85f5f40adb26f58472f059a6eda |
| ENCFF396GMA.tabix.bed.gz | 2.31 MB | b5edcf04de4c624b570700ed93b2f55e |
| ENCFF396GMA.tabix.bed.gz.tbi | 793.59 KB | 6fa100dd784bbe8894705a20fa654a6a |
| genomic_resource.yaml | 2.33 KB | 93335bdc570b7557f8f9e972534b7393 |
| statistics/ |