Histone_ChIP-seq_ENCSR000AMH
Histone_ChIP-seq ENCSR000AMH [biosample_summary="Homo sapiens H1" and target="H4K20me1"]
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| Id: | Histone_ChIP-seq/ENCSR000AMH |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000AMH [biosamplesummary="Homo sapiens H1" and target="H4K20me1"] |
| Description: |
status: archived biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN708WXQ|/analyses/ENCAN708WXQ/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF644BVX|/files/ENCFF644BVX/} processed by ChIP-seq ENCODE3 hg19 pipeline has 13486681 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 {ENCFF706GWV|/files/ENCFF706GWV/} processed by ChIP-seq ENCODE3 hg19 pipeline has 11026534 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 {ENCFF706GWV|/files/ENCFF706GWV/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.88. 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 {ENCFF706GWV|/files/ENCFF706GWV/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 8.62. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000AMH | float |
Histone_ChIP-seq_ENCSR000AMH |
Histone_ChIP-seq ENCSR000AMH [biosample_summary="Homo sapiens H1" and target="H4K20me1"]
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[2.05, 11.1] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF657VHK.bed.gz | 1.03 MB | bf40913df90c6cc3dbc789cd5e434118 |
| ENCFF657VHK.bed.gz.dvc | 101.0 B | a94398dca2326d067e48f942ab720847 |
| ENCFF657VHK.tabix.bed.gz | 518.74 KB | 4dd1a3e103eebd753dc1ae3fdcb3c830 |
| ENCFF657VHK.tabix.bed.gz.dvc | 106.0 B | b156c0a7f92ad549335591202421a81c |
| ENCFF657VHK.tabix.bed.gz.tbi | 152.56 KB | 59b73cd4f31a062ea24d2595e81039fa |
| ENCFF657VHK.tabix.bed.gz.tbi.dvc | 110.0 B | b59ef199f6620200c3f3387ec8f4932b |
| genomic_resource.yaml | 3.66 KB | 7eb8f02db56a560a7e316c2bf9683494 |
| genomic_resource_original.yaml | 3.55 KB | 88044b67c55e6191c61b70e0b972914c |
| statistics/ |