Histone_ChIP-seq_ENCSR000DWZ
Histone_ChIP-seq ENCSR000DWZ [biosample_summary="Homo sapiens fibroblast of lung male adult (45 years)" and target="H3K4me3"]
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| Id: | Histone_ChIP-seq/ENCSR000DWZ |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000DWZ [biosamplesummary="Homo sapiens fibroblast of lung male adult (45 years)" and target="H3K4me3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: male adult (45 years) output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN982FHJ|/analyses/ENCAN982FHJ/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_warning: Processed alignments file {ENCFF235IZE|/files/ENCFF235IZE/} processed by ChIP-seq ENCODE3 hg19 pipeline has 15204472 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 {ENCFF770TPW|/files/ENCFF770TPW/} processed by ChIP-seq ENCODE3 hg19 pipeline has 19211021 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 {ENCFF235IZE|/files/ENCFF235IZE/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.87. 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 {ENCFF235IZE|/files/ENCFF235IZE/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 8.06. 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 {ENCFF770TPW|/files/ENCFF770TPW/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.87. 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 {ENCFF770TPW|/files/ENCFF770TPW/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 7.83. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000DWZ | float |
Histone_ChIP-seq_ENCSR000DWZ |
Histone_ChIP-seq ENCSR000DWZ [biosample_summary="Homo sapiens fibroblast of lung male adult (45 years)" and target="H3K4me3"]
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[1.73, 138] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF865HDE.bed.gz | 905.2 KB | 04595fb622fd7915300dfb640c7b702d |
| ENCFF865HDE.bed.gz.dvc | 100.0 B | 196a8d21bd64ee4826daefb938412b72 |
| ENCFF865HDE.tabix.bed.gz | 389.25 KB | 2ab65da70e32accf4d1d879010a57a7f |
| ENCFF865HDE.tabix.bed.gz.dvc | 106.0 B | d2bc74abec76d8b10138c726d8cb087c |
| ENCFF865HDE.tabix.bed.gz.tbi | 185.76 KB | 49f84770366cae716f33ed44eb0aa4f1 |
| ENCFF865HDE.tabix.bed.gz.tbi.dvc | 110.0 B | 32a3a43d91fe78995d4b94d3f925a1eb |
| genomic_resource.yaml | 4.95 KB | 6640c9e9243c1ba97cb444f15f3f6a59 |
| genomic_resource_original.yaml | 4.81 KB | b2eb4e484aa69474839daf772578f47e |
| statistics/ |