ATAC-seq_ENCSR999NKW
ATAC-seq ENCSR999NKW [biosample_summary="Homo sapiens prostate gland tissue male adult (54 years)"]
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| Id: | ATAC-seq/ENCSR999NKW |
| Type: | position_score |
| Version: | 0 |
| Summary: |
ATAC-seq ENCSR999NKW [biosample_summary="Homo sapiens prostate gland tissue male adult (54 years)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male adult (54 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN518UZV|/analyses/ENCAN518UZV/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_internal_action: Released analysis {ENCAN518UZV|/analyses/ENCAN518UZV/} has in progress subobject document {7e497c52-6f63-4231-bc89-c15a5f751eb4|/documents/7e497c52-6f63-4231-bc89-c15a5f751eb4/} 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. {ENCFF030AIT|/files/ENCFF030AIT/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline has a FRiP score of 0.06. audit_not_compliant: 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) {ENCFF030AIT|/files/ENCFF030AIT/} (overlap peaks) and {ENCFF963ISM|/files/ENCFF963ISM/} (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline have 65658 and 20844 peaks. audit_warning: Alignment file {ENCFF678CZL|/files/ENCFF678CZL/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline has 21947987 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. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| ATAC-seq_ENCSR999NKW | float |
ATAC-seq_ENCSR999NKW |
ATAC-seq ENCSR999NKW [biosample_summary="Homo sapiens prostate gland tissue male adult (54 years)"]
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[1.73, 24.6] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF030AIT.bed.gz | 1.49 MB | 891e6c4cb3c072fea3d81e1b33742c54 |
| ENCFF030AIT.bed.gz.dvc | 101.0 B | 356a9f13733529699baba6ef2c424f2d |
| ENCFF030AIT.tabix.bed.gz | 553.36 KB | 7d657672861e45b7aeee911a929dd620 |
| ENCFF030AIT.tabix.bed.gz.dvc | 106.0 B | 277a02cab6dc49f350fc6532f668cefe |
| ENCFF030AIT.tabix.bed.gz.tbi | 328.28 KB | 5e3df81f62eaa6dbc6e66835db392c45 |
| ENCFF030AIT.tabix.bed.gz.tbi.dvc | 110.0 B | ec3597d7bcf94d7e26b57ef9aed2d432 |
| genomic_resource.yaml | 2.95 KB | a4e26c6b5fcc9ed323ac9ce3cd32102b |
| genomic_resource_original.yaml | 2.85 KB | f15e3c933548e0faa0bdc32f9ea4c293 |
| statistics/ |