Resource
| Id | DNase-seq/ENCSR171ADO |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR171ADO [biosample_summary="Homo sapiens gastrocnemius medialis tissue male adult (37 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (37 years) output_type: peaks audit_internal_action: Released analysis {ENCAN462INF|/analyses/ENCAN462INF/} has in progress subobject document {e6febaa3-f34f-427a-b386-8547a0adb3ed|/documents/e6febaa3-f34f-427a-b386-8547a0adb3ed/} 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 {ENCFF513STI|/files/ENCFF513STI/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly have a SPOT1 score of 0.28. 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_ENCSR171ADO | float |
DNase-seq_ENCSR171ADO |
DNase-seq ENCSR171ADO [biosample_summary="Homo sapiens gastrocnemius medialis tissue male adult (37 years)"]
|
 |
[0.106, 18.1] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 11283652 | 0.35% | 60939 |
| chr1 | 1114979 | 0.45% | 5960 |
| chr2 | 916637 | 0.38% | 4963 |
| chr3 | 756975 | 0.38% | 4101 |
| chr4 | 451138 | 0.24% | 2498 |
| chr5 | 581433 | 0.32% | 3239 |
| chr6 | 696572 | 0.41% | 3760 |
| chr7 | 539590 | 0.34% | 2968 |
| chr8 | 473644 | 0.33% | 2585 |
| chr9 | 493259 | 0.36% | 2654 |
| chr10 | 577221 | 0.43% | 3154 |
| chr11 | 583935 | 0.43% | 3134 |
| chr12 | 544955 | 0.41% | 2924 |
| chr13 | 261446 | 0.23% | 1430 |
| chr14 | 356452 | 0.33% | 1939 |
| chr15 | 411452 | 0.40% | 2209 |
| chr16 | 395788 | 0.44% | 2126 |
| chr17 | 553038 | 0.66% | 2936 |
| chr18 | 208040 | 0.26% | 1155 |
| chr19 | 448924 | 0.77% | 2261 |
| chr20 | 299665 | 0.46% | 1607 |
| chr21 | 124467 | 0.27% | 684 |
| chr22 | 238956 | 0.47% | 1276 |
| chrX | 242379 | 0.16% | 1310 |
| chrY | 12707 | 0.02% | 66 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 60939 | 12 | 760 | 185.16 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF599SNK.bed.gz | 669.47 KB | a655fbbd6b3dd9d713275998e71f3f58 |
| ENCFF599SNK.tabix.bed.gz | 605.76 KB | 5168bce4b56b7cab7fd1c08fe8b57aca |
| ENCFF599SNK.tabix.bed.gz.tbi | 288.39 KB | ca58c333e159cda4711704d62ed92b24 |
| genomic_resource.yaml | 2.27 KB | fae125491dab2b4b1da969c31e3e7444 |
| statistics/ |