ATAC-seq_ENCSR761TKU
ATAC-seq ENCSR761TKU [biosample_summary="Homo sapiens transverse colon tissue male adult (54 years)"]
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| Id: | ATAC-seq/ENCSR761TKU |
| Type: | position_score |
| Version: | 0 |
| Summary: |
ATAC-seq ENCSR761TKU [biosample_summary="Homo sapiens transverse colon 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 {ENCAN664RQJ|/analyses/ENCAN664RQJ/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_internal_action: Released analysis {ENCAN664RQJ|/analyses/ENCAN664RQJ/} has in progress subobject document {f2e34401-e046-493f-b7c4-b1ea26f9763c|/documents/f2e34401-e046-493f-b7c4-b1ea26f9763c/} 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. {ENCFF591HMI|/files/ENCFF591HMI/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline has a FRiP score of 0.09. audit_warning: NRF (Non Redundant Fraction) is equal to the result of the division of the number of reads after duplicates removal by the total number of reads. An NRF value < 0.7 is poor complexity, between 0.7 and 0.9 is moderate complexity, and >= 0.9 high complexity. NRF value > 0.9 is recommended, but > 0.7 is acceptable. ENCODE processed file {ENCFF455YNB|/files/ENCFF455YNB/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.883989. audit_warning: PBC1 (PCR Bottlenecking Coefficient 1, M1/M_distinct) is the ratio of the number of genomic locations where exactly one read maps uniquely (M1) to the number of genomic locations where some reads map (M_distinct). A PBC1 value in the range 0 - 0.5 is severe bottlenecking, 0.5 - 0.8 is moderate bottlenecking, 0.8 - 0.9 is mild bottlenecking, and > 0.9 is no bottlenecking. PBC1 value > 0.9 is recommended, but > 0.7 is acceptable. ENCODE processed file {ENCFF455YNB|/files/ENCFF455YNB/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.89. 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) {ENCFF591HMI|/files/ENCFF591HMI/} (overlap peaks) and {ENCFF668ARP|/files/ENCFF668ARP/} (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline have 106493 and 51803 peaks. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| ATAC-seq_ENCSR761TKU | float |
ATAC-seq_ENCSR761TKU |
ATAC-seq ENCSR761TKU [biosample_summary="Homo sapiens transverse colon tissue male adult (54 years)"]
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[1.54, 28.5] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF591HMI.bed.gz | 2.48 MB | 4f117fc635261637669d029096222fe8 |
| ENCFF591HMI.bed.gz.dvc | 101.0 B | 2e21cd666771fefef641e51fcd643bf6 |
| ENCFF591HMI.tabix.bed.gz | 722.46 KB | 0304001519e6beb1610741a1ab8ac9c9 |
| ENCFF591HMI.tabix.bed.gz.dvc | 106.0 B | 3f35cf6f5021c24d265d9764bbf6c77e |
| ENCFF591HMI.tabix.bed.gz.tbi | 354.57 KB | f16efbbbf34386bdaaf1076412df39b8 |
| ENCFF591HMI.tabix.bed.gz.tbi.dvc | 110.0 B | a8a4555ea64e16a295b9def5e568e9bd |
| genomic_resource.yaml | 3.74 KB | 9517bed471eda9641f53067a86e8420c |
| genomic_resource_original.yaml | 3.64 KB | 89da4921668c0987a23551a9149d8488 |
| statistics/ |