Resource
| Id | DNase-seq/ENCSR364MFN |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR364MFN [biosample_summary="Homo sapiens hepatocyte originated from H9"] |
| Description |
status: released biological_replicates: Rep 1 summary: female embryo (5 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 {ENCFF538CJS|/files/ENCFF538CJS/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.30. 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 {ENCFF851CVH|/files/ENCFF851CVH/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 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_ENCSR364MFN | float |
DNase-seq_ENCSR364MFN |
DNase-seq ENCSR364MFN [biosample_summary="Homo sapiens hepatocyte originated from H9"]
|
 |
[0.0241, 13.1] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 32230535 | 1.00% | 167038 |
| chr1 | 2999740 | 1.20% | 15345 |
| chr2 | 2473159 | 1.02% | 12989 |
| chr3 | 1962765 | 0.99% | 10346 |
| chr4 | 1544671 | 0.81% | 8201 |
| chr5 | 1691029 | 0.93% | 8939 |
| chr6 | 1853808 | 1.09% | 9644 |
| chr7 | 1568196 | 0.98% | 8156 |
| chr8 | 1469244 | 1.01% | 7740 |
| chr9 | 1417017 | 1.02% | 7343 |
| chr10 | 1465675 | 1.10% | 7666 |
| chr11 | 1720874 | 1.27% | 8843 |
| chr12 | 1560739 | 1.17% | 8089 |
| chr13 | 745091 | 0.65% | 3991 |
| chr14 | 1068760 | 1.00% | 5507 |
| chr15 | 1031162 | 1.01% | 5343 |
| chr16 | 1144897 | 1.27% | 5863 |
| chr17 | 1586325 | 1.91% | 7905 |
| chr18 | 702860 | 0.87% | 3703 |
| chr19 | 1318483 | 2.25% | 6348 |
| chr20 | 901602 | 1.40% | 4668 |
| chr21 | 374302 | 0.80% | 1962 |
| chr22 | 722760 | 1.42% | 3671 |
| chrX | 905747 | 0.58% | 4763 |
| chrY | 1629 | <0.01% | 13 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 167038 | 1 | 1040 | 192.95 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF592AII.bed.gz | 1.8 MB | 5a03a9935564df0fa7502570bf0d1bb0 |
| ENCFF592AII.tabix.bed.gz | 1.65 MB | 72d418833981fe1397544601298d1c8d |
| ENCFF592AII.tabix.bed.gz.tbi | 571.94 KB | 5081a782e27bf07a11ef75cc9bd9ff37 |
| genomic_resource.yaml | 2.84 KB | 381340959a3f408e16d7956cc7cb258a |
| statistics/ |