Resource
| Id | DNase-seq/ENCSR664PKM |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR664PKM [biosample_summary="Homo sapiens heart tissue embryo (59 days) and female embryo (76 days)"] |
| Description |
status: released biological_replicates: Rep 1 summary: embryo (59 days) female embryo (76 days) 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 {ENCFF845UVD|/files/ENCFF845UVD/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.35. 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/}) 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 {ENCFF618GPG|/files/ENCFF618GPG/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.39. 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_ENCSR664PKM | float |
DNase-seq_ENCSR664PKM |
DNase-seq ENCSR664PKM [biosample_summary="Homo sapiens heart tissue embryo (59 days) and female embryo (76 days)"]
|
 |
[0.016, 13.5] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 50362715 | 1.57% | 205873 |
| chr1 | 4702834 | 1.89% | 18654 |
| chr2 | 4100567 | 1.69% | 16901 |
| chr3 | 3401201 | 1.72% | 13840 |
| chr4 | 2666100 | 1.40% | 10814 |
| chr5 | 3012917 | 1.66% | 12225 |
| chr6 | 3209030 | 1.88% | 12823 |
| chr7 | 2584561 | 1.62% | 10637 |
| chr8 | 2421546 | 1.67% | 9967 |
| chr9 | 2096461 | 1.51% | 8655 |
| chr10 | 2654905 | 1.98% | 10682 |
| chr11 | 2528793 | 1.87% | 10338 |
| chr12 | 2471831 | 1.85% | 10084 |
| chr13 | 1451414 | 1.27% | 5969 |
| chr14 | 1478681 | 1.38% | 6121 |
| chr15 | 1714909 | 1.68% | 6967 |
| chr16 | 1416874 | 1.57% | 6001 |
| chr17 | 2016988 | 2.42% | 8210 |
| chr18 | 1222903 | 1.52% | 4958 |
| chr19 | 1377345 | 2.35% | 5735 |
| chr20 | 1173199 | 1.82% | 4925 |
| chr21 | 562814 | 1.20% | 2289 |
| chr22 | 814195 | 1.60% | 3451 |
| chrX | 1243306 | 0.80% | 5426 |
| chrY | 39341 | 0.07% | 201 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 205873 | 1 | 1440 | 244.63 | 220 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF372KCN.bed.gz | 2.14 MB | 27b655acdece28e6926d6327149b19fc |
| ENCFF372KCN.tabix.bed.gz | 2.01 MB | 7571777ef81e580998dd82aea2386f28 |
| ENCFF372KCN.tabix.bed.gz.tbi | 582.82 KB | 94ee8fc9e6991c02df44224efbfcb019 |
| genomic_resource.yaml | 2.95 KB | 4412d73f69ac4e3c371f2a726b5b1e1d |
| statistics/ |