TF_ChIP-seq_ENCSR000EVY
TF_ChIP-seq ENCSR000EVY [biosample_summary="Homo sapiens K562" and target="TRIM28"]
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| Id: | TF_ChIP-seq/ENCSR000EVY |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR000EVY [biosamplesummary="Homo sapiens K562" and target="TRIM28"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: optimal IDR thresholded peaks audit_internal_action: Archived analysis {ENCAN506NMB|/analyses/ENCAN506NMB/} has in progress subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/} audit_not_compliant: Processed alignments file {ENCFF997OPU|/files/ENCFF997OPU/} processed by ChIP-seq ENCODE3 hg19 pipeline has 9940077 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting TRIM28-human and investigated as a transcription factor 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: Processed alignments file {ENCFF282OJT|/files/ENCFF282OJT/} processed by ChIP-seq ENCODE3 hg19 pipeline has 10196684 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting TRIM28-human and investigated as a transcription factor 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 {ENCFF282OJT|/files/ENCFF282OJT/} 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 {ENCFF282OJT|/files/ENCFF282OJT/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 6.59. 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 {ENCFF997OPU|/files/ENCFF997OPU/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.82. 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 {ENCFF997OPU|/files/ENCFF997OPU/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 5.79. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR000EVY | float |
TF_ChIP-seq_ENCSR000EVY |
TF_ChIP-seq ENCSR000EVY [biosample_summary="Homo sapiens K562" and target="TRIM28"]
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[5.7, 321] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF591BIT.bed.gz | 107.24 KB | 3cbd8317834ea4a0b339e357c3badbe1 |
| ENCFF591BIT.bed.gz.dvc | 100.0 B | bdc7e0285cb0e82c09c04614001428b1 |
| ENCFF591BIT.tabix.bed.gz | 93.17 KB | 050eaa9a4d1736f48685c5cad21e1a1a |
| ENCFF591BIT.tabix.bed.gz.dvc | 105.0 B | 9bdbd613a7c074846921090f385bc52a |
| ENCFF591BIT.tabix.bed.gz.tbi | 45.62 KB | 5b4f228716731b6f7f8af888e4e66fba |
| ENCFF591BIT.tabix.bed.gz.tbi.dvc | 109.0 B | d76d4a7237dc6cb84d732764ab0f5f23 |
| genomic_resource.yaml | 4.94 KB | 3e691b9c6425ad968d0fa41ca1d3deb1 |
| genomic_resource_original.yaml | 4.84 KB | 0a048f6ba2852b24bbc714d990ba06d1 |
| statistics/ |