Resource
| Id | DNase-seq/ENCSR923JYH |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR923JYH [biosample_summary="Homo sapiens transverse colon tissue male adult (37 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (37 years) output_type: peaks audit_internal_action: Archived analysis {ENCAN195KIO|/analyses/ENCAN195KIO/} 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 {ENCFF707FHL|/files/ENCFF707FHL/} processed by DNase-seq ENCODE3 GRCh38 pipeline ({ENCPL202DNS|/pipelines/ENCPL202DNS/}) for GRCh38 assembly have a SPOT1 score of 0.38. 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_ENCSR923JYH | float |
DNase-seq_ENCSR923JYH |
DNase-seq ENCSR923JYH [biosample_summary="Homo sapiens transverse colon tissue male adult (37 years)"]
|
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[7, 9.35e+03] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 7845223 | 0.24% | 52230 |
| chr1 | 797069 | 0.32% | 5305 |
| chr2 | 603542 | 0.25% | 4020 |
| chr3 | 469405 | 0.24% | 3127 |
| chr4 | 333866 | 0.18% | 2224 |
| chr5 | 386285 | 0.21% | 2572 |
| chr6 | 456655 | 0.27% | 3043 |
| chr7 | 374054 | 0.23% | 2490 |
| chr8 | 321750 | 0.22% | 2141 |
| chr9 | 333081 | 0.24% | 2221 |
| chr10 | 374142 | 0.28% | 2490 |
| chr11 | 419700 | 0.31% | 2790 |
| chr12 | 388937 | 0.29% | 2589 |
| chr13 | 168600 | 0.15% | 1120 |
| chr14 | 262775 | 0.25% | 1749 |
| chr15 | 264150 | 0.26% | 1760 |
| chr16 | 308976 | 0.34% | 2055 |
| chr17 | 401907 | 0.48% | 2675 |
| chr18 | 142650 | 0.18% | 948 |
| chr19 | 366736 | 0.63% | 2444 |
| chr20 | 211646 | 0.33% | 1409 |
| chr21 | 91950 | 0.20% | 612 |
| chr22 | 161053 | 0.32% | 1072 |
| chrX | 193914 | 0.12% | 1291 |
| chrY | 12380 | 0.02% | 83 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 52230 | 17 | 300 | 150.21 | 150 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF484EYC.bed.gz | 526.13 KB | 8e9279bb169cc6f7499e0ec3473a7e17 |
| ENCFF484EYC.tabix.bed.gz | 446.97 KB | d4d3b138e7da9bc1c2fd68d9b6102bd7 |
| ENCFF484EYC.tabix.bed.gz.tbi | 274.77 KB | 97f83fec97bdc406c1c384dab74b7c79 |
| genomic_resource.yaml | 2.21 KB | 7f9c4819d258117ba1190db4bda637e1 |
| statistics/ |
