Resource
| Id | DNase-seq/ENCSR909HFI |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR909HFI [biosample_summary="Homo sapiens right lobe of liver tissue female adult (53 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (53 years) output_type: peaks audit_internal_action: Archived analysis {ENCAN958DUD|/analyses/ENCAN958DUD/} 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 {ENCFF748SML|/files/ENCFF748SML/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL202DNS|/pipelines/ENCPL202DNS/}) 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/}) |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR909HFI | float |
DNase-seq_ENCSR909HFI |
DNase-seq ENCSR909HFI [biosample_summary="Homo sapiens right lobe of liver tissue female adult (53 years)"]
|
 |
[7, 1.13e+05] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 14575310 | 0.45% | 97089 |
| chr1 | 1419671 | 0.57% | 9457 |
| chr2 | 1111588 | 0.46% | 7402 |
| chr3 | 894144 | 0.45% | 5954 |
| chr4 | 585564 | 0.31% | 3901 |
| chr5 | 725490 | 0.40% | 4836 |
| chr6 | 816986 | 0.48% | 5445 |
| chr7 | 696622 | 0.44% | 4638 |
| chr8 | 659772 | 0.45% | 4394 |
| chr9 | 680303 | 0.49% | 4533 |
| chr10 | 692972 | 0.52% | 4619 |
| chr11 | 757161 | 0.56% | 5044 |
| chr12 | 690789 | 0.52% | 4600 |
| chr13 | 325072 | 0.28% | 2167 |
| chr14 | 451259 | 0.42% | 3010 |
| chr15 | 500251 | 0.49% | 3330 |
| chr16 | 572173 | 0.63% | 3814 |
| chr17 | 704587 | 0.85% | 4693 |
| chr18 | 314810 | 0.39% | 2094 |
| chr19 | 629954 | 1.07% | 4199 |
| chr20 | 436629 | 0.68% | 2906 |
| chr21 | 188482 | 0.40% | 1252 |
| chr22 | 342832 | 0.67% | 2285 |
| chrX | 376549 | 0.24% | 2505 |
| chrY | 1650 | <0.01% | 11 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 97089 | 2 | 450 | 150.12 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF558OLX.bed.gz | 973.98 KB | 59b28fcf86e97e4632b57a4035a0cb5e |
| ENCFF558OLX.tabix.bed.gz | 832.58 KB | d0eaa4d897ea4f6e68892e5884757057 |
| ENCFF558OLX.tabix.bed.gz.tbi | 395.39 KB | d2806b5017fde2b61ad42061c8fb34d3 |
| genomic_resource.yaml | 2.22 KB | cb62eecd4d9b5a7cbb278178c658a34d |
| statistics/ |