Resource
| Id | ATAC-seq/ENCSR278JWM |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR278JWM [biosample_summary="Homo sapiens HG03558"] |
| Description |
status: released biological_replicates: Rep 1 summary: output_type: pseudoreplicated peaks audit_error: Alignment file {ENCFF842JIO|/files/ENCFF842JIO/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline has 12353607 usable fragments. According to ENCODE4 standards, ATAC-seq assays processed by the uniform processing pipeline should have > 25 million usable fragments. 20-25 million is acceptable and < 15 million is not compliant. audit_internal_action: Released analysis {ENCAN200ZNV|/analyses/ENCAN200ZNV/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_warning: According to ENCODE4 standards, ATAC-seq assays processed by the uniform processing pipeline should have either >150k reproducible peaks in an overlap peaks file, or >70k in an IDR thresholded peaks file. 100-150k or 50-70k peaks respectively is acceptable, and <100k or <50k respectively is not compliant. File(s) {ENCFF861UUN|/files/ENCFF861UUN/} (overlap peaks) and {ENCFF305ZQQ|/files/ENCFF305ZQQ/} (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline have 114143 and 52082 peaks. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR278JWM | float |
ATAC-seq_ENCSR278JWM |
ATAC-seq ENCSR278JWM [biosample_summary="Homo sapiens HG03558"]
|
 |
[1.66, 33.5] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 38753898 | 1.20% | 88261 |
| chr1 | 3393784 | 1.36% | 7610 |
| chr2 | 3442986 | 1.42% | 8016 |
| chr3 | 2812000 | 1.42% | 6608 |
| chr4 | 2407012 | 1.27% | 5724 |
| chr5 | 2453944 | 1.35% | 5736 |
| chr6 | 2657611 | 1.56% | 6070 |
| chr7 | 2208091 | 1.39% | 5081 |
| chr8 | 2030888 | 1.40% | 4730 |
| chr9 | 1518030 | 1.10% | 3418 |
| chr10 | 1866956 | 1.40% | 4228 |
| chr11 | 1804137 | 1.34% | 4120 |
| chr12 | 1899137 | 1.42% | 4274 |
| chr13 | 1113143 | 0.97% | 2589 |
| chr14 | 1151798 | 1.08% | 2554 |
| chr15 | 1022265 | 1.00% | 2271 |
| chr16 | 1006785 | 1.11% | 2107 |
| chr17 | 1177501 | 1.41% | 2482 |
| chr18 | 892867 | 1.11% | 2103 |
| chr19 | 950051 | 1.62% | 1803 |
| chr20 | 762764 | 1.18% | 1730 |
| chr21 | 371586 | 0.80% | 810 |
| chr22 | 395569 | 0.78% | 830 |
| chrX | 1414327 | 0.91% | 3365 |
| chrY | 666 | <0.01% | 2 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 88261 | 150 | 2324 | 439.08 | 373 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF861UUN.bed.gz | 2.73 MB | 7333126f932faf634a01980b94a497b0 |
| ENCFF861UUN.tabix.bed.gz | 959.96 KB | 9dcdaee0861115be92028c39f762a8ed |
| ENCFF861UUN.tabix.bed.gz.tbi | 430.44 KB | b7171a1172202f56a8cdf51d95e46975 |
| genomic_resource.yaml | 2.22 KB | 8d23e0bbae0d6ff85c4d3d94cff4e4d6 |
| statistics/ |