Histone_ChIP-seq_ENCSR197XDQ
Histone_ChIP-seq ENCSR197XDQ [biosample_summary="Homo sapiens MCF-7" and target="H3F3A"]
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| Id: | Histone_ChIP-seq/ENCSR197XDQ |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR197XDQ [biosamplesummary="Homo sapiens MCF-7" and target="H3F3A"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: pseudoreplicated peaks audit_internal_action: Released analysis {ENCAN239WKA|/analyses/ENCAN239WKA/} has in progress subobject document {a7fa7cec-df17-4b7d-8e31-50118d958736|/documents/a7fa7cec-df17-4b7d-8e31-50118d958736/} audit_internal_action: Released analysis {ENCAN239WKA|/analyses/ENCAN239WKA/} has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF183HME|/files/ENCFF183HME/} processed by ChIP-seq ENCODE4 v1.6.0 GRCh38 pipeline has 32569135 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3F3A-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 {ENCFF626ORM|/files/ENCFF626ORM/} processed by ChIP-seq ENCODE4 v1.6.0 GRCh38 pipeline has 22407444 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3F3A-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 {ENCFF626ORM|/files/ENCFF626ORM/} 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 {ENCFF626ORM|/files/ENCFF626ORM/} 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_ENCSR197XDQ | float |
Histone_ChIP-seq_ENCSR197XDQ |
Histone_ChIP-seq ENCSR197XDQ [biosample_summary="Homo sapiens MCF-7" and target="H3F3A"]
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[1.29, 8.37] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF595UXF.bed.gz | 334.45 KB | bf3cf96b9be05097fffdf0275b046ab1 |
| ENCFF595UXF.bed.gz.dvc | 100.0 B | a3b407122491b1b6c7efedece57bee9c |
| ENCFF595UXF.tabix.bed.gz | 154.53 KB | 488c51fa1812453a5c1f9f96e317854a |
| ENCFF595UXF.tabix.bed.gz.dvc | 106.0 B | 331c4606ce4cb366777bcf481e4894f8 |
| ENCFF595UXF.tabix.bed.gz.tbi | 83.25 KB | 4b6e7aecfa4e17899e27e963cea20dde |
| ENCFF595UXF.tabix.bed.gz.tbi.dvc | 109.0 B | e6db31d9ea87f9d8ab41b894228e5160 |
| genomic_resource.yaml | 3.92 KB | d8fb97b42e1b40fe1cee18edc1c84663 |
| genomic_resource_original.yaml | 3.81 KB | 32528ec92a9345ad7e67b785b28c632b |
| statistics/ |