TF_ChIP-seq_ENCSR987PBI
TF_ChIP-seq ENCSR987PBI [biosample_summary="Homo sapiens K562" and target="DNMT1"]
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| Id: | TF_ChIP-seq/ENCSR987PBI |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR987PBI [biosamplesummary="Homo sapiens K562" and target="DNMT1"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: optimal IDR thresholded peaks audit_internal_action: Archived analysis {ENCAN994TJL|/analyses/ENCAN994TJL/} 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 {ENCFF469DEJ|/files/ENCFF469DEJ/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.88. 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 {ENCFF469DEJ|/files/ENCFF469DEJ/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 8.17. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF167QKF|/files/ENCFF167QKF/}, {ENCFF712YDU|/files/ENCFF712YDU/} processed by ChIP-seq ENCODE3 hg19 pipeline have a rescue ratio of 3.09 and a self consistency ratio of 1.76. 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 {ENCFF997JHM|/files/ENCFF997JHM/}, {ENCFF034PQD|/files/ENCFF034PQD/} processed by ChIP-seq ENCODE3 hg19 pipeline have a rescue ratio of 3.09 and a self consistency ratio of 1.76. 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_ENCSR987PBI | float |
TF_ChIP-seq_ENCSR987PBI |
TF_ChIP-seq ENCSR987PBI [biosample_summary="Homo sapiens K562" and target="DNMT1"]
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[12.1, 252] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF034PQD.bed.gz | 68.51 KB | 79eeb002c4537a9f9bcd3ee531b71688 |
| ENCFF034PQD.bed.gz.dvc | 99.0 B | f072781d0c9b4a3322f94715946020dc |
| ENCFF034PQD.tabix.bed.gz | 45.59 KB | 6ea415234de73599540650090181d2af |
| ENCFF034PQD.tabix.bed.gz.dvc | 105.0 B | 3eb3e96d85b2d2d3cffc9d3523ee23eb |
| ENCFF034PQD.tabix.bed.gz.tbi | 32.12 KB | 936fdc2b8d6b3df16b03cb07c907d5ba |
| ENCFF034PQD.tabix.bed.gz.tbi.dvc | 109.0 B | 60ad780b629d1ed43dfd4483438c682c |
| genomic_resource.yaml | 3.77 KB | 481c11455247d6ebe9b619dda50afa45 |
| genomic_resource_original.yaml | 3.68 KB | 7ad356d4ecfb85b7337c8fc87f728e78 |
| statistics/ |