Resource
| Id | DNase-seq/ENCSR000EIK |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR000EIK [biosample_summary="Homo sapiens frontal cortex tissue male adult (27 years) and male adult (35 years)"] |
| Description |
status: released biological_replicates: Rep 2 summary: male adult (35 years) male adult (27 years) output_type: peaks audit_internal_action: Released analysis {ENCAN379KID|/analyses/ENCAN379KID/} has in progress subobject document {5ba1a2cd-7836-49d6-802c-dda409dbd6cc|/documents/5ba1a2cd-7836-49d6-802c-dda409dbd6cc/} 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 {ENCFF939YKY|/files/ENCFF939YKY/} processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) 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-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 {ENCFF846MVS|/files/ENCFF846MVS/} processed by DNase-seq ENCODE4 v3.0.0 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_ENCSR000EIK | float |
DNase-seq_ENCSR000EIK |
DNase-seq ENCSR000EIK [biosample_summary="Homo sapiens frontal cortex tissue male adult (27 years) and male adult (35 years)"]
|
 |
[0.07, 22.8] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 14137257 | 0.44% | 73092 |
| chr1 | 1368008 | 0.55% | 7033 |
| chr2 | 1036516 | 0.43% | 5403 |
| chr3 | 846578 | 0.43% | 4370 |
| chr4 | 587896 | 0.31% | 3042 |
| chr5 | 664113 | 0.37% | 3497 |
| chr6 | 757105 | 0.44% | 3929 |
| chr7 | 702694 | 0.44% | 3674 |
| chr8 | 591087 | 0.41% | 3123 |
| chr9 | 612533 | 0.44% | 3153 |
| chr10 | 667980 | 0.50% | 3473 |
| chr11 | 792176 | 0.59% | 4093 |
| chr12 | 712019 | 0.53% | 3637 |
| chr13 | 305355 | 0.27% | 1618 |
| chr14 | 464204 | 0.43% | 2369 |
| chr15 | 454075 | 0.45% | 2378 |
| chr16 | 536851 | 0.59% | 2799 |
| chr17 | 741771 | 0.89% | 3760 |
| chr18 | 256928 | 0.32% | 1361 |
| chr19 | 798955 | 1.36% | 3896 |
| chr20 | 415590 | 0.64% | 2173 |
| chr21 | 147059 | 0.31% | 762 |
| chr22 | 334534 | 0.66% | 1704 |
| chrX | 333569 | 0.21% | 1791 |
| chrY | 9661 | 0.02% | 54 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 73092 | 1 | 900 | 193.42 | 181 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF400QKK.bed.gz | 795.34 KB | 1241201168910a69d39fe052f53f56fe |
| ENCFF400QKK.tabix.bed.gz | 726.16 KB | d4cb2862939a7da9b18df15d819f461e |
| ENCFF400QKK.tabix.bed.gz.tbi | 324.02 KB | 39803633a1a8e01d985c422b8e5ede53 |
| genomic_resource.yaml | 3.18 KB | 8ca1e25516f2742dbba6f537d729e7a9 |
| statistics/ |