TF_ChIP-seq_ENCSR664AOA
TF_ChIP-seq ENCSR664AOA [biosample_summary="Homo sapiens K562" and target="TRIM25"]
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| Id: | TF_ChIP-seq/ENCSR664AOA |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR664AOA [biosamplesummary="Homo sapiens K562" and target="TRIM25"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: optimal IDR thresholded peaks audit_internal_action: Archived analysis {ENCAN584YTU|/analyses/ENCAN584YTU/} has in progress subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/} 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 {ENCFF295YCP|/files/ENCFF295YCP/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.85. 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 {ENCFF295YCP|/files/ENCFF295YCP/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 6.62. 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 {ENCFF517DRY|/files/ENCFF517DRY/} processed by ChIP-seq ENCODE3 hg19 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 {ENCFF517DRY|/files/ENCFF517DRY/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 5.18. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF985CNU|/files/ENCFF985CNU/}, {ENCFF285VIS|/files/ENCFF285VIS/} processed by ChIP-seq ENCODE3 hg19 pipeline have a rescue ratio of 1.85 and a self consistency ratio of 2.46. According to ENCODE standards, having both rescue ratio and self consistency ratio values < 2 is recommended, but having only one of the ratio values < 2 is acceptable. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF682WUJ|/files/ENCFF682WUJ/}, {ENCFF403IWW|/files/ENCFF403IWW/} processed by ChIP-seq ENCODE3 hg19 pipeline have a rescue ratio of 1.85 and a self consistency ratio of 2.46. According to ENCODE standards, having both rescue ratio and self consistency ratio values < 2 is recommended, but having only one of the ratio values < 2 is acceptable. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR664AOA | float |
TF_ChIP-seq_ENCSR664AOA |
TF_ChIP-seq ENCSR664AOA [biosample_summary="Homo sapiens K562" and target="TRIM25"]
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[11.5, 614] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF682WUJ.bed.gz | 116.93 KB | bcb87e6c16a811091ebe8b11b5ed22d8 |
| ENCFF682WUJ.bed.gz.dvc | 100.0 B | 1558e76e0a64fb2a4b9f247713c26f6c |
| ENCFF682WUJ.tabix.bed.gz | 78.84 KB | 568441151b8b585ed73d074a086dc05e |
| ENCFF682WUJ.tabix.bed.gz.dvc | 105.0 B | 13e759c354db3acf3ddfba7982d4cd31 |
| ENCFF682WUJ.tabix.bed.gz.tbi | 53.49 KB | 22a794335e8da784ab3d9275bf63c509 |
| ENCFF682WUJ.tabix.bed.gz.tbi.dvc | 109.0 B | 7d916c3b5702ab6040c73bc709931c1b |
| genomic_resource.yaml | 5.62 KB | 3a0bcb586c36193ddf95784bc40787ed |
| genomic_resource_original.yaml | 5.52 KB | 757d28b1a7557dfe88b96951d2e5a45d |
| statistics/ |