Histone_ChIP-seq_ENCSR634MAK
Histone_ChIP-seq ENCSR634MAK [biosample_summary="Homo sapiens HUES64" and target="H3K27me3"]
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| Id: | Histone_ChIP-seq/ENCSR634MAK |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR634MAK [biosamplesummary="Homo sapiens HUES64" and target="H3K27me3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN415XDJ|/analyses/ENCAN415XDJ/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF083LRD|/files/ENCFF083LRD/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 11747412 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 {ENCFF230FVU|/files/ENCFF230FVU/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 26056838 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 {ENCFF083LRD|/files/ENCFF083LRD/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.89. 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 {ENCFF083LRD|/files/ENCFF083LRD/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 9.06. 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 {ENCFF230FVU|/files/ENCFF230FVU/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.90. 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 {ENCFF230FVU|/files/ENCFF230FVU/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 9.95. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR634MAK | float |
Histone_ChIP-seq_ENCSR634MAK |
Histone_ChIP-seq ENCSR634MAK [biosample_summary="Homo sapiens HUES64" and target="H3K27me3"]
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[1.37, 67.5] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF090XFB.bed.gz | 1.04 MB | a6943a9f4bb537dfdf00372cf24c9a27 |
| ENCFF090XFB.bed.gz.dvc | 101.0 B | a653f1380f264927a30a730e09c39577 |
| ENCFF090XFB.tabix.bed.gz | 481.59 KB | 0e5150f93a017d5209e881632a807a38 |
| ENCFF090XFB.tabix.bed.gz.dvc | 106.0 B | 801d8930d7f2a96aae4d4652405c5d1b |
| ENCFF090XFB.tabix.bed.gz.tbi | 135.23 KB | ea1d156e1fb97e46050c81478f7bd727 |
| ENCFF090XFB.tabix.bed.gz.tbi.dvc | 110.0 B | 1be1e724d81294557dd22936c861b7d5 |
| genomic_resource.yaml | 4.98 KB | 698e0f6b2348dd9fb8cbaa6688d39cec |
| genomic_resource_original.yaml | 4.87 KB | 5e518453ec5f75e3d872db0aaaac5f4e |
| statistics/ |