Histone_ChIP-seq_ENCSR000ALC
Histone_ChIP-seq ENCSR000ALC [biosample_summary="Homo sapiens endothelial cell of umbilical vein newborn" and target="H3K36me3"]
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| Id: | Histone_ChIP-seq/ENCSR000ALC |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000ALC [biosamplesummary="Homo sapiens endothelial cell of umbilical vein newborn" and target="H3K36me3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: newborn output_type: replicated peaks audit_error: Processed alignments file {ENCFF571XAD|/files/ENCFF571XAD/} processed by ChIP-seq ENCODE3 hg19 pipeline has 999999 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K36me3-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_internal_action: Archived analysis {ENCAN586WEO|/analyses/ENCAN586WEO/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF449FVX|/files/ENCFF449FVX/} processed by ChIP-seq ENCODE3 hg19 pipeline has 5403144 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K36me3-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 {ENCFF140AOS|/files/ENCFF140AOS/} processed by ChIP-seq ENCODE3 hg19 pipeline has 7896082 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K36me3-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 {ENCFF571XAD|/files/ENCFF571XAD/} 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 {ENCFF571XAD|/files/ENCFF571XAD/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 6.13. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000ALC | float |
Histone_ChIP-seq_ENCSR000ALC |
Histone_ChIP-seq ENCSR000ALC [biosample_summary="Homo sapiens endothelial cell of umbilical vein newborn" and target="H3K36me3"]
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[1.68, 13.4] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF594LVO.bed.gz | 1.31 MB | 1aa27998e808c274c366578a6a1103f1 |
| ENCFF594LVO.bed.gz.dvc | 101.0 B | 3533b242f3e3b08fd01e12ac4935ee91 |
| ENCFF594LVO.tabix.bed.gz | 672.0 KB | 1a906b1028e499f462299866d94f61e2 |
| ENCFF594LVO.tabix.bed.gz.dvc | 106.0 B | a0277bc3ab0f5f7f1d082d4b88e1ae3c |
| ENCFF594LVO.tabix.bed.gz.tbi | 144.92 KB | d7330eb319563e8124a0d3b08540a154 |
| ENCFF594LVO.tabix.bed.gz.tbi.dvc | 110.0 B | 299f6e9f69cc849565f5c987a4b368a9 |
| genomic_resource.yaml | 4.33 KB | e51dbbf92013081ec8822d4f6aaafd00 |
| genomic_resource_original.yaml | 4.19 KB | d30a30bd8d9bdfaa87df823d4855485b |
| statistics/ |