Histone_ChIP-seq_ENCSR000DQP
Histone_ChIP-seq ENCSR000DQP [biosample_summary="Homo sapiens B cell female adult (43 years)" and target="H3K4me3"]
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| Id: | Histone_ChIP-seq/ENCSR000DQP |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000DQP [biosamplesummary="Homo sapiens B cell female adult (43 years)" and target="H3K4me3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: female adult (43 years) output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN279TAZ|/analyses/ENCAN279TAZ/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_warning: Processed alignments file {ENCFF642FEV|/files/ENCFF642FEV/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 14344681 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K4me3-human and investigated as a narrow histone mark is 10 million usable fragments. The recommended value is > 20 million, but > 10 million is acceptable. (See {ENCODE ChIP-seq data standards|/data-standards/chip-seq/}) audit_warning: Processed alignments file {ENCFF842FEQ|/files/ENCFF842FEQ/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 17755740 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K4me3-human and investigated as a narrow histone mark is 10 million usable fragments. The recommended value is > 20 million, but > 10 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 {ENCFF642FEV|/files/ENCFF642FEV/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.86. 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 {ENCFF642FEV|/files/ENCFF642FEV/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 7.64. 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 {ENCFF842FEQ|/files/ENCFF842FEQ/} 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 {ENCFF842FEQ|/files/ENCFF842FEQ/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 6.70. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000DQP | float |
Histone_ChIP-seq_ENCSR000DQP |
Histone_ChIP-seq ENCSR000DQP [biosample_summary="Homo sapiens B cell female adult (43 years)" and target="H3K4me3"]
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[1.92, 157] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF258BVG.bed.gz | 845.25 KB | a2bceb3af83d90c01e8f45daa2d2242c |
| ENCFF258BVG.bed.gz.dvc | 100.0 B | 2468ab7859e6b58e4d13e18c69c9a78f |
| ENCFF258BVG.tabix.bed.gz | 374.11 KB | e4987e7fb3b8574b9142f056032f1a4f |
| ENCFF258BVG.tabix.bed.gz.dvc | 106.0 B | 4e1bf9b3a9fe91e0be3112fed81698b4 |
| ENCFF258BVG.tabix.bed.gz.tbi | 176.0 KB | 7e778122e954effba32f9179fde8b3fb |
| ENCFF258BVG.tabix.bed.gz.tbi.dvc | 110.0 B | 649078f65c5c836c5a80a1c88bb0a811 |
| genomic_resource.yaml | 5.23 KB | 422e9515ee7dbc1327917393fce35cef |
| genomic_resource_original.yaml | 5.11 KB | 67a837e9156d80e763f7871752a123fa |
| statistics/ |