Histone_ChIP-seq_ENCSR000DUJ
Histone_ChIP-seq ENCSR000DUJ [biosample_summary="Homo sapiens foreskin fibroblast male newborn" and target="H3K4me3"]
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| Id: | Histone_ChIP-seq/ENCSR000DUJ |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000DUJ [biosamplesummary="Homo sapiens foreskin fibroblast male newborn" and target="H3K4me3"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male newborn output_type: pseudoreplicated peaks audit_internal_action: Archived analysis {ENCAN328QXM|/analyses/ENCAN328QXM/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_warning: Processed alignments file {ENCFF023FMY|/files/ENCFF023FMY/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 14629513 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K4me3-human and investigated as a narrow histone mark is 10 million usable fragments. The recommended value is > 20 million, but > 10 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 {ENCFF023FMY|/files/ENCFF023FMY/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.81. 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 {ENCFF023FMY|/files/ENCFF023FMY/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 5.59. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000DUJ | float |
Histone_ChIP-seq_ENCSR000DUJ |
Histone_ChIP-seq ENCSR000DUJ [biosample_summary="Homo sapiens foreskin fibroblast male newborn" and target="H3K4me3"]
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[2.15, 137] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF385THT.bed.gz | 721.28 KB | efb82ec45cbb1fb14723964590495102 |
| ENCFF385THT.bed.gz.dvc | 100.0 B | a59c4393507f32a6417353a5a344c4aa |
| ENCFF385THT.tabix.bed.gz | 305.61 KB | a5b44cc6918031d2fd010dd7174e053e |
| ENCFF385THT.tabix.bed.gz.dvc | 106.0 B | 1a48b40241606184f02f1ceb773c6861 |
| ENCFF385THT.tabix.bed.gz.tbi | 156.04 KB | f3f1b9b9f044d0e2b522c8efd1f3c08f |
| ENCFF385THT.tabix.bed.gz.tbi.dvc | 110.0 B | 840618bd228cc4063f197d905744beb9 |
| genomic_resource.yaml | 3.19 KB | 58771132aba5fb14a7d99c9ff94b417d |
| genomic_resource_original.yaml | 3.06 KB | 53f567f077adbb3a372bdd3826b51e98 |
| statistics/ |