Histone_ChIP-seq_ENCSR000APO
Histone_ChIP-seq ENCSR000APO [biosample_summary="Homo sapiens fibroblast of dermis" and target="H3K27me3"]
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| Id: | Histone_ChIP-seq/ENCSR000APO |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000APO [biosamplesummary="Homo sapiens fibroblast of dermis" and target="H3K27me3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN899AFH|/analyses/ENCAN899AFH/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF678BZW|/files/ENCFF678BZW/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 6859804 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K27me3-human and investigated as a broad histone mark is 20 million usable fragments. The recommended value is > 45 million, but > 35 million is acceptable. (See {ENCODE ChIP-seq data standards|/data-standards/chip-seq/}) audit_not_compliant: Processed alignments file {ENCFF275IVB|/files/ENCFF275IVB/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 25537974 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K27me3-human and investigated as a broad histone mark is 20 million usable fragments. The recommended value is > 45 million, but > 35 million is acceptable. (See {ENCODE ChIP-seq data standards|/data-standards/chip-seq/}) 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 > 0.8 is acceptable. ENCODE processed alignments file {ENCFF275IVB|/files/ENCFF275IVB/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.83. audit_warning: PBC2 (PCR Bottlenecking Coefficient 2, M1/M2) is the ratio of the number of genomic locations where exactly one read maps uniquely (M1) to the number of genomic locations where two reads map uniquely (M2). A PBC2 value in the range 0 - 1 is severe bottlenecking, 1 - 3 is moderate bottlenecking, 3 - 10 is mild bottlenecking, > 10 is no bottlenecking. PBC2 value > 10 is recommended, but > 3 is acceptable. ENCODE processed alignments file {ENCFF275IVB|/files/ENCFF275IVB/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 5.76. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000APO | float |
Histone_ChIP-seq_ENCSR000APO |
Histone_ChIP-seq ENCSR000APO [biosample_summary="Homo sapiens fibroblast of dermis" and target="H3K27me3"]
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[1.93, 14.7] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF450JBC.bed.gz | 718.85 KB | 0436099a503a50c369209b933f769a61 |
| ENCFF450JBC.bed.gz.dvc | 100.0 B | 08a7161cf832d8e39970612e419ab990 |
| ENCFF450JBC.tabix.bed.gz | 387.91 KB | 69c7709f3fe4d30efcdd7006fcc5b475 |
| ENCFF450JBC.tabix.bed.gz.dvc | 106.0 B | da7c83ae9908694f52650a251f70f00b |
| ENCFF450JBC.tabix.bed.gz.tbi | 127.44 KB | aa8cf02686596d6c6e91dae272b3aaba |
| ENCFF450JBC.tabix.bed.gz.tbi.dvc | 110.0 B | 5159e1fdc284ce24cc364733efeec406 |
| genomic_resource.yaml | 3.81 KB | 17859f5785f22b65ab9363a954a0df60 |
| genomic_resource_original.yaml | 3.69 KB | 7f42db35187cee3b57f879baf8f96b93 |
| statistics/ |