Histone_ChIP-seq_ENCSR000APQ
Histone_ChIP-seq ENCSR000APQ [biosample_summary="Homo sapiens fibroblast of dermis" and target="H3K4me2"]
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| Id: | Histone_ChIP-seq/ENCSR000APQ |
| Type: | position_score |
| Version: | 0 |
| Summary: |
HistoneChIP-seq ENCSR000APQ [biosamplesummary="Homo sapiens fibroblast of dermis" and target="H3K4me2"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN410ANP|/analyses/ENCAN410ANP/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed alignments file {ENCFF439DMO|/files/ENCFF439DMO/} processed by ChIP-seq ENCODE3 hg19 pipeline has 8818655 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K4me2-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 {ENCFF516TKM|/files/ENCFF516TKM/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.86. 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 {ENCFF516TKM|/files/ENCFF516TKM/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 7.24. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR000APQ | float |
Histone_ChIP-seq_ENCSR000APQ |
Histone_ChIP-seq ENCSR000APQ [biosample_summary="Homo sapiens fibroblast of dermis" and target="H3K4me2"]
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[1.69, 31.3] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF350PQN.bed.gz | 1.95 MB | c511531474e85ea473270d172753e7b6 |
| ENCFF350PQN.bed.gz.dvc | 101.0 B | d32dc305bbb2001e6f66ecc9479c2164 |
| ENCFF350PQN.tabix.bed.gz | 932.38 KB | b9ae7be6a175ca373eed26b338a93243 |
| ENCFF350PQN.tabix.bed.gz.dvc | 106.0 B | 2ca0998bb2778bb1a708a3344f86adc9 |
| ENCFF350PQN.tabix.bed.gz.tbi | 306.05 KB | 4dc24c5796b7d88ee4429e980d9788f6 |
| ENCFF350PQN.tabix.bed.gz.tbi.dvc | 110.0 B | 5ab4be6045a4489223c5976f7643ddf9 |
| genomic_resource.yaml | 3.3 KB | 3228c0d79bda3cbd2d0c3515aab394d8 |
| genomic_resource_original.yaml | 3.18 KB | 52718300f950b9402ab3a79f5d23536c |
| statistics/ |