Histone_ChIP-seq_ENCSR000AQT
Histone_ChIP-seq ENCSR000AQT [biosample_summary="Homo sapiens osteoblast" and target="H4K20me1"]
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| Id: | Histone_ChIP-seq/ENCSR000AQT |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000AQT [biosamplesummary="Homo sapiens osteoblast" and target="H4K20me1"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN932KLY|/analyses/ENCAN932KLY/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF769AQO|/files/ENCFF769AQO/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 8474307 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H4K20me1-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 {ENCFF540VPY|/files/ENCFF540VPY/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 24334848 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H4K20me1-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 {ENCFF540VPY|/files/ENCFF540VPY/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.89. 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 {ENCFF540VPY|/files/ENCFF540VPY/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 8.99. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000AQT | float |
Histone_ChIP-seq_ENCSR000AQT |
Histone_ChIP-seq ENCSR000AQT [biosample_summary="Homo sapiens osteoblast" and target="H4K20me1"]
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[1.75, 18.6] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF938HJZ.bed.gz | 1.98 MB | ff94126c25b3bbca652c5d714d9e1ac0 |
| ENCFF938HJZ.bed.gz.dvc | 101.0 B | 2d7e49bd1384c9448d68bdbd5a0e54f5 |
| ENCFF938HJZ.tabix.bed.gz | 977.28 KB | 795a796556cfce26bfa0a9124d264eeb |
| ENCFF938HJZ.tabix.bed.gz.dvc | 107.0 B | bfd6717a627606a88111b78af58852c3 |
| ENCFF938HJZ.tabix.bed.gz.tbi | 158.48 KB | 19b21a837003cc113eb7db1bf6a2049e |
| ENCFF938HJZ.tabix.bed.gz.tbi.dvc | 110.0 B | bff286a1910031a7f15f0664bd65f7f4 |
| genomic_resource.yaml | 3.69 KB | 9653466e92cfc753e944e5dc7dccc42d |
| genomic_resource_original.yaml | 3.58 KB | c5291e59246029e70741851fd85317d1 |
| statistics/ |