ATAC-seq_ENCSR260ZIV
ATAC-seq ENCSR260ZIV [biosample_summary="Homo sapiens gastroesophageal sphincter tissue female adult (51 years)"]
×
| Id: | ATAC-seq/ENCSR260ZIV |
| Type: | position_score |
| Version: | 0 |
| Summary: |
ATAC-seq ENCSR260ZIV [biosample_summary="Homo sapiens gastroesophageal sphincter tissue female adult (51 years)"] |
| Description: |
status: released biological_replicates: Rep 1 summary: female adult (51 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN850AHB|/analyses/ENCAN850AHB/} has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/} audit_internal_action: Released analysis {ENCAN850AHB|/analyses/ENCAN850AHB/} has in progress subobject document {321f70ec-2b4f-4b46-a505-d98e090642c4|/documents/321f70ec-2b4f-4b46-a505-d98e090642c4/} 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. {ENCFF401GGO|/files/ENCFF401GGO/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline has a FRiP score of 0.10. 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 {ENCFF558QLX|/files/ENCFF558QLX/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF value of 0.879083. 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 {ENCFF558QLX|/files/ENCFF558QLX/} processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with a PBC1 value of 0.88. 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) {ENCFF401GGO|/files/ENCFF401GGO/} (overlap peaks) and {ENCFF580UXE|/files/ENCFF580UXE/} (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline have 137173 and 69556 peaks. |
| Labels: |
|
| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| ATAC-seq_ENCSR260ZIV | float |
ATAC-seq_ENCSR260ZIV |
ATAC-seq ENCSR260ZIV [biosample_summary="Homo sapiens gastroesophageal sphincter tissue female adult (51 years)"]
|
|
[1.59, 27] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF401GGO.bed.gz | 3.16 MB | 4c14c0db0f8834a79edf4a89b62781a1 |
| ENCFF401GGO.bed.gz.dvc | 101.0 B | 236708e98c5c0ec4ef2f4abb50d61658 |
| ENCFF401GGO.tabix.bed.gz | 850.99 KB | 24b2b62562630a01852bd725295ed3ff |
| ENCFF401GGO.tabix.bed.gz.dvc | 106.0 B | df7c014026820b7136c09c5e5b98113f |
| ENCFF401GGO.tabix.bed.gz.tbi | 389.14 KB | 2e8c0a5233ff5c71efadfaca08a050fa |
| ENCFF401GGO.tabix.bed.gz.tbi.dvc | 110.0 B | b63479f14ec0545f0b5086953b9f8d3e |
| genomic_resource.yaml | 3.79 KB | 54726402a962133214f58d63c10bf8ef |
| genomic_resource_original.yaml | 3.67 KB | 4c06b84515001498842cf4f2327978f1 |
| statistics/ |