Resource
| Id | ATAC-seq/ENCSR017RQC |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | ATAC-seq ENCSR017RQC [biosample_summary="Homo sapiens Peyer''s patch tissue female adult (53 years)"] |
| Description |
status: released biological_replicates: Rep 1 summary: female adult (53 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN952JCC|/analyses/ENCAN952JCC/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_internal_action: Released analysis {ENCAN952JCC|/analyses/ENCAN952JCC/} has in progress subobject document {664cd382-ec9a-4478-994d-4f975424ad12|/documents/664cd382-ec9a-4478-994d-4f975424ad12/} audit_not_compliant: According to ENCODE4 standards, overlap peaks files in ATAC-seq assays processed by the uniform processing pipeline should have FRiP (fraction of reads in called peak regions) scores > 0.3. FRiP scores 0.2-0.3 are acceptable, and < 0.2 are not compliant. {ENCFF956UCP|/files/ENCFF956UCP/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline has a FRiP score of 0.08. 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) {ENCFF956UCP|/files/ENCFF956UCP/} (overlap peaks) and {ENCFF374BNC|/files/ENCFF374BNC/} (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline have 101932 and 40947 peaks. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| ATAC-seq_ENCSR017RQC | float |
ATAC-seq_ENCSR017RQC |
ATAC-seq ENCSR017RQC [biosample_summary="Homo sapiens Peyer''s patch tissue female adult (53 years)"]
|
 |
[1.53, 29.2] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 32320322 | 1.00% | 68348 |
| chr1 | 3011038 | 1.21% | 6232 |
| chr2 | 2500402 | 1.03% | 5428 |
| chr3 | 1948654 | 0.98% | 4204 |
| chr4 | 1545378 | 0.81% | 3439 |
| chr5 | 1698408 | 0.94% | 3726 |
| chr6 | 1868583 | 1.09% | 4006 |
| chr7 | 1787513 | 1.12% | 3871 |
| chr8 | 1435080 | 0.99% | 3177 |
| chr9 | 1366453 | 0.99% | 2843 |
| chr10 | 1465260 | 1.10% | 3184 |
| chr11 | 1639980 | 1.21% | 3416 |
| chr12 | 1555874 | 1.17% | 3264 |
| chr13 | 858655 | 0.75% | 1888 |
| chr14 | 998205 | 0.93% | 2066 |
| chr15 | 968776 | 0.95% | 2005 |
| chr16 | 1158567 | 1.28% | 2318 |
| chr17 | 1437702 | 1.73% | 2824 |
| chr18 | 718497 | 0.89% | 1632 |
| chr19 | 1438114 | 2.45% | 2666 |
| chr20 | 807389 | 1.25% | 1708 |
| chr21 | 434306 | 0.93% | 924 |
| chr22 | 625213 | 1.23% | 1233 |
| chrX | 1050674 | 0.67% | 2287 |
| chrY | 1601 | <0.01% | 7 |
| 3342 contigs with no values (129077085 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 68348 | 150 | 2625 | 472.88 | 372 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF956UCP.bed.gz | 2.32 MB | e025fac2b64f8f42b33d8912d3c95aa1 |
| ENCFF956UCP.tabix.bed.gz | 750.03 KB | 43799fa9107d18736d01c0a2c4e186de |
| ENCFF956UCP.tabix.bed.gz.tbi | 382.71 KB | f97ac5a77fe02102e078a54dfb9a9c06 |
| genomic_resource.yaml | 2.59 KB | c2a76ba00ba826639b7376f7445b3f5f |
| statistics/ |