Resource
| Id | ATAC-seq/ENCSR299LSN |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR299LSN [biosample_summary="Homo sapiens T-cell male adult (42 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: male adult (42 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN000LOD|/analyses/ENCAN000LOD/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_warning: Alignment file {ENCFF580RMB|/files/ENCFF580RMB/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline has 22233789 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_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) {ENCFF867TMP|/files/ENCFF867TMP/} (overlap peaks) and {ENCFF904ZLF|/files/ENCFF904ZLF/} (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline have 105361 and 69623 peaks. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR299LSN | float |
ATAC-seq_ENCSR299LSN |
ATAC-seq ENCSR299LSN [biosample_summary="Homo sapiens T-cell male adult (42 years)"]
|
 |
[1.52, 38] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 33968902 | 1.06% | 62994 |
| chr1 | 3417145 | 1.37% | 6222 |
| chr2 | 2590205 | 1.07% | 4985 |
| chr3 | 1957025 | 0.99% | 3753 |
| chr4 | 1230200 | 0.65% | 2341 |
| chr5 | 1593435 | 0.88% | 3054 |
| chr6 | 2009910 | 1.18% | 3786 |
| chr7 | 1659283 | 1.04% | 3170 |
| chr8 | 1311750 | 0.90% | 2535 |
| chr9 | 1351223 | 0.98% | 2546 |
| chr10 | 1593394 | 1.19% | 3060 |
| chr11 | 1727194 | 1.28% | 3139 |
| chr12 | 1713196 | 1.29% | 3127 |
| chr13 | 770398 | 0.67% | 1523 |
| chr14 | 1186370 | 1.11% | 2204 |
| chr15 | 1119052 | 1.10% | 2129 |
| chr16 | 1310635 | 1.45% | 2255 |
| chr17 | 1908860 | 2.29% | 3303 |
| chr18 | 599512 | 0.75% | 1225 |
| chr19 | 1727811 | 2.95% | 2856 |
| chr20 | 913300 | 1.42% | 1698 |
| chr21 | 461835 | 0.99% | 845 |
| chr22 | 825857 | 1.63% | 1469 |
| chrX | 939831 | 0.60% | 1664 |
| chrY | 51481 | 0.09% | 105 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 62994 | 150 | 2961 | 539.24 | 425 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF867TMP.bed.gz | 2.49 MB | 7c482749f4592d2527ae17c29efd940f |
| ENCFF867TMP.tabix.bed.gz | 704.58 KB | c5f9cdd933c11acc298f0502f1441064 |
| ENCFF867TMP.tabix.bed.gz.tbi | 310.84 KB | 762c21666c286f7bbbff4915f7dda8bf |
| genomic_resource.yaml | 2.29 KB | 1b80ef75d6f61478e636aff5cdecb695 |
| statistics/ |