Resource
| Id | DNase-seq/ENCSR383SNM |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | DNase-seq ENCSR383SNM [biosample_summary="Homo sapiens iPS DF 19.11"] |
| Description |
status: released biological_replicates: Rep 1 summary: 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 {ENCFF501MYE|/files/ENCFF501MYE/} 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/}) |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| DNase-seq_ENCSR383SNM | float |
DNase-seq_ENCSR383SNM |
DNase-seq ENCSR383SNM [biosample_summary="Homo sapiens iPS DF 19.11"]
|
 |
[0.0474, 16.5] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 35208527 | 1.09% | 188532 |
| chr1 | 3184408 | 1.28% | 16740 |
| chr2 | 2762047 | 1.14% | 14994 |
| chr3 | 2233204 | 1.13% | 12140 |
| chr4 | 1877737 | 0.99% | 10343 |
| chr5 | 1934968 | 1.07% | 10436 |
| chr6 | 2100528 | 1.23% | 11286 |
| chr7 | 1782812 | 1.12% | 9676 |
| chr8 | 1610647 | 1.11% | 8736 |
| chr9 | 1480769 | 1.07% | 7979 |
| chr10 | 1652827 | 1.24% | 8876 |
| chr11 | 1811074 | 1.34% | 9607 |
| chr12 | 1717654 | 1.29% | 9145 |
| chr13 | 966063 | 0.84% | 5330 |
| chr14 | 1124815 | 1.05% | 5989 |
| chr15 | 1107179 | 1.09% | 5888 |
| chr16 | 1148281 | 1.27% | 6018 |
| chr17 | 1431837 | 1.72% | 7376 |
| chr18 | 829069 | 1.03% | 4574 |
| chr19 | 1308622 | 2.23% | 6490 |
| chr20 | 909715 | 1.41% | 4829 |
| chr21 | 341102 | 0.73% | 1827 |
| chr22 | 574596 | 1.13% | 3015 |
| chrX | 1236571 | 0.79% | 6762 |
| chrY | 82002 | 0.14% | 476 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 188532 | 1 | 880 | 186.75 | 180 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF172GXY.bed.gz | 1.99 MB | 8874a91a591d90ba6f94349c96f3148a |
| ENCFF172GXY.tabix.bed.gz | 1.82 MB | dbeb9c06ce64b379dcf0e9923602e476 |
| ENCFF172GXY.tabix.bed.gz.tbi | 686.76 KB | 75a9ed5c23043405d4856919b16e69e6 |
| genomic_resource.yaml | 1.93 KB | 8dc5ca032ed66c19e4e0a267c9ae11f8 |
| statistics/ |