Histone_ChIP-seq_ENCSR866KFY
Histone_ChIP-seq ENCSR866KFY [biosample_summary="Homo sapiens GM23248" and target="H3K27me3"]
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| Id: | Histone_ChIP-seq/ENCSR866KFY |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR866KFY [biosamplesummary="Homo sapiens GM23248" and target="H3K27me3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN646SHM|/analyses/ENCAN646SHM/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF122SGX|/files/ENCFF122SGX/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 32287940 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 {ENCFF943RTB|/files/ENCFF943RTB/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 33129669 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 {ENCFF122SGX|/files/ENCFF122SGX/} processed by ChIP-seq ENCODE3 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 {ENCFF122SGX|/files/ENCFF122SGX/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 5.66. 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 {ENCFF943RTB|/files/ENCFF943RTB/} processed by ChIP-seq ENCODE3 GRCh38 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 {ENCFF943RTB|/files/ENCFF943RTB/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 8.02. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR866KFY | float |
Histone_ChIP-seq_ENCSR866KFY |
Histone_ChIP-seq ENCSR866KFY [biosample_summary="Homo sapiens GM23248" and target="H3K27me3"]
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[1.34, 9.3] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF272UZC.bed.gz | 1.68 MB | 415f9fb18ab0186089eb9135d40796d9 |
| ENCFF272UZC.bed.gz.dvc | 101.0 B | 23473e226b1e00b1c46c990aa11c9d51 |
| ENCFF272UZC.tabix.bed.gz | 863.06 KB | d5675370289ccefd4ff14e667b140670 |
| ENCFF272UZC.tabix.bed.gz.dvc | 106.0 B | fc35a6b81b77a637fa9417300492f72c |
| ENCFF272UZC.tabix.bed.gz.tbi | 188.92 KB | 3b6e0d74b88aca82d7078f90d8452069 |
| ENCFF272UZC.tabix.bed.gz.tbi.dvc | 110.0 B | cd46385a21ebdb087d96422f10f91f18 |
| genomic_resource.yaml | 5.67 KB | 216cc78d74531886d1c1946cfc926acf |
| genomic_resource_original.yaml | 5.56 KB | befb46579d66967003a671711a7222b8 |
| statistics/ |