Histone_ChIP-seq_ENCSR000DXF
Histone_ChIP-seq ENCSR000DXF [biosample_summary="Homo sapiens epithelial cell of proximal tubule" and target="H3K4me3"]
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| Id: | Histone_ChIP-seq/ENCSR000DXF |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000DXF [biosamplesummary="Homo sapiens epithelial cell of proximal tubule" and target="H3K4me3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN538MPJ|/analyses/ENCAN538MPJ/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_warning: Processed alignments file {ENCFF771LTX|/files/ENCFF771LTX/} processed by ChIP-seq ENCODE3 hg19 pipeline has 17227219 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 {ENCFF247ZBG|/files/ENCFF247ZBG/} processed by ChIP-seq ENCODE3 hg19 pipeline has 16548004 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 {ENCFF771LTX|/files/ENCFF771LTX/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.85. 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 {ENCFF771LTX|/files/ENCFF771LTX/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 7.05. 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 {ENCFF247ZBG|/files/ENCFF247ZBG/} processed by ChIP-seq ENCODE3 hg19 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 {ENCFF247ZBG|/files/ENCFF247ZBG/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 6.39. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000DXF | float |
Histone_ChIP-seq_ENCSR000DXF |
Histone_ChIP-seq ENCSR000DXF [biosample_summary="Homo sapiens epithelial cell of proximal tubule" and target="H3K4me3"]
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[1.29, 149] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF671PZC.bed.gz | 932.78 KB | f0a98492d0f65d367c1d6d4c314b02e6 |
| ENCFF671PZC.bed.gz.dvc | 100.0 B | a7dd58d23321e67a90ad0539f3e2540f |
| ENCFF671PZC.tabix.bed.gz | 395.85 KB | 41504e747b495923570a0e47dd59ce4e |
| ENCFF671PZC.tabix.bed.gz.dvc | 106.0 B | e3f577d673a2c3c54266813ae608a067 |
| ENCFF671PZC.tabix.bed.gz.tbi | 186.64 KB | c957b536d454b0e259ef20c974f46832 |
| ENCFF671PZC.tabix.bed.gz.tbi.dvc | 110.0 B | dee1ec20c4a9e9744bc1e8b9885a2368 |
| genomic_resource.yaml | 5.03 KB | 4da6ce1e605cdffe4070f2e6bc01c17c |
| genomic_resource_original.yaml | 4.9 KB | 24d6d1763ea01adec9aca0177d53b1a9 |
| statistics/ |