Histone_ChIP-seq_ENCSR490YCL
Histone_ChIP-seq ENCSR490YCL [biosample_summary="Homo sapiens spleen tissue male adult (34 years)" and target="H3K4me1"]
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| Id: | Histone_ChIP-seq/ENCSR490YCL |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR490YCL [biosamplesummary="Homo sapiens spleen tissue male adult (34 years)" and target="H3K4me1"] |
| Description: |
status: released biological_replicates: Rep 1 summary: male adult (34 years) output_type: pseudoreplicated peaks audit_internal_action: Archived analysis {ENCAN453FIE|/analyses/ENCAN453FIE/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF677QFG|/files/ENCFF677QFG/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 20756432 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K4me1-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 {ENCFF677QFG|/files/ENCFF677QFG/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.87. 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 {ENCFF677QFG|/files/ENCFF677QFG/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 8.39. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR490YCL | float |
Histone_ChIP-seq_ENCSR490YCL |
Histone_ChIP-seq ENCSR490YCL [biosample_summary="Homo sapiens spleen tissue male adult (34 years)" and target="H3K4me1"]
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[1.89, 70.7] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF031QWK.bed.gz | 2.41 MB | 50a8185d3f91b64507a8c86131fcdc65 |
| ENCFF031QWK.bed.gz.dvc | 101.0 B | e8ff369420f0ede9c4032bcc4b0d2f2a |
| ENCFF031QWK.tabix.bed.gz | 1.19 MB | b671b1f15d000646b8dbe38427f1b91e |
| ENCFF031QWK.tabix.bed.gz.dvc | 107.0 B | 69d5b67fc7d323131c18175efccf152b |
| ENCFF031QWK.tabix.bed.gz.tbi | 310.13 KB | f401f80bb0e50fa628ba9e46f8bf3f10 |
| ENCFF031QWK.tabix.bed.gz.tbi.dvc | 110.0 B | 4e0ce20a87f8eb0e0ebb79cab89bf351 |
| genomic_resource.yaml | 3.22 KB | f7698a8f2e2fdecb59ee06127edc3c00 |
| genomic_resource_original.yaml | 3.09 KB | 0c66fbad0f7ded138bfa9281a2caf5f8 |
| statistics/ |