Histone_ChIP-seq_ENCSR000ALX
Histone_ChIP-seq ENCSR000ALX [biosample_summary="Homo sapiens mammary epithelial cell female adult (50 years)" and target="H3K27me3"]
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| Id: | Histone_ChIP-seq/ENCSR000ALX |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000ALX [biosamplesummary="Homo sapiens mammary epithelial cell female adult (50 years)" and target="H3K27me3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: female adult (50 years) output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN407JAU|/analyses/ENCAN407JAU/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_internal_action: Released analysis {ENCAN407JAU|/analyses/ENCAN407JAU/} has in progress subobject document {ac0d55c0-aa50-4bb5-b075-6d0de38938f6|/documents/ac0d55c0-aa50-4bb5-b075-6d0de38938f6/} audit_not_compliant: Processed alignments file {ENCFF730XKI|/files/ENCFF730XKI/} processed by ChIP-seq ENCODE4 v1.6.0 GRCh38 pipeline has 6667208 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K27me3-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 {ENCFF034GVN|/files/ENCFF034GVN/} processed by ChIP-seq ENCODE4 v1.6.0 GRCh38 pipeline has 8026132 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K27me3-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 {ENCFF034GVN|/files/ENCFF034GVN/} processed by ChIP-seq ENCODE4 v1.6.0 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 {ENCFF034GVN|/files/ENCFF034GVN/} processed by ChIP-seq ENCODE4 v1.6.0 GRCh38 pipeline was generated from a library with PBC2 value of 5.76. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000ALX | float |
Histone_ChIP-seq_ENCSR000ALX |
Histone_ChIP-seq ENCSR000ALX [biosample_summary="Homo sapiens mammary epithelial cell female adult (50 years)" and target="H3K27me3"]
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[2.19, 16.8] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF518UWB.bed.gz | 933.07 KB | 9cad3e8cb0579131c0facbc00d27031d |
| ENCFF518UWB.bed.gz.dvc | 100.0 B | 484c042c541156d354a38e00727ad56e |
| ENCFF518UWB.tabix.bed.gz | 479.5 KB | a281a015cd59fc43e51067ae1862decc |
| ENCFF518UWB.tabix.bed.gz.dvc | 106.0 B | 26fdbfb3816d6df2d206c3c475665d58 |
| ENCFF518UWB.tabix.bed.gz.tbi | 213.83 KB | 043baa5266fd6e08f6c76f875b43716b |
| ENCFF518UWB.tabix.bed.gz.tbi.dvc | 110.0 B | 9e09edabee073fb2b4239a58b08ace2c |
| genomic_resource.yaml | 3.99 KB | 70721ff0061502fb7321056c31d9e526 |
| genomic_resource_original.yaml | 3.84 KB | 8e254071be61255a6538acb67a84f779 |
| statistics/ |