TF_ChIP-seq_ENCSR039CUX
TF_ChIP-seq ENCSR039CUX [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PLSCR1" and target="PLSCR1"]
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| Id: | TF_ChIP-seq/ENCSR039CUX |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR039CUX [biosamplesummary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PLSCR1" and target="PLSCR1"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: genetically modified (insertion) using CRISPR targeting H. sapiens PLSCR1 output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN760VTW|/analyses/ENCAN760VTW/} has in progress subobject document {1d503bac-b31b-4d45-a4bd-6b55db81a447|/documents/1d503bac-b31b-4d45-a4bd-6b55db81a447/} audit_internal_action: Released analysis {ENCAN760VTW|/analyses/ENCAN760VTW/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-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 {ENCFF199SJS|/files/ENCFF199SJS/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline was generated from a library with PBC1 value of 0.84. 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 {ENCFF199SJS|/files/ENCFF199SJS/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline was generated from a library with PBC2 value of 6.03. 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 {ENCFF175QWV|/files/ENCFF175QWV/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline was generated from a library with PBC1 value of 0.90. 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 {ENCFF175QWV|/files/ENCFF175QWV/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline was generated from a library with PBC2 value of 9.82. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF991XSG|/files/ENCFF991XSG/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline have a rescue ratio of 1.38 and a self consistency ratio of 4.69. 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 {ENCFF693TEO|/files/ENCFF693TEO/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline have a rescue ratio of 1.38 and a self consistency ratio of 4.69. 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_ENCSR039CUX | float |
TF_ChIP-seq_ENCSR039CUX |
TF_ChIP-seq ENCSR039CUX [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PLSCR1" and target="PLSCR1"]
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[8.46, 466] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF991XSG.bed.gz | 46.13 KB | 66694b9d2c5cc98bde16a54d8100daae |
| ENCFF991XSG.bed.gz.dvc | 99.0 B | c0c41a38bfbc41ea12465389d4d5c0c3 |
| ENCFF991XSG.tabix.bed.gz | 34.78 KB | 0884c58c2104ef54fe8973d345848fbb |
| ENCFF991XSG.tabix.bed.gz.dvc | 105.0 B | 31a695b248a18fb58cba0dd04059e987 |
| ENCFF991XSG.tabix.bed.gz.tbi | 22.65 KB | a3f615e557fd922285aac78ee5eb4a81 |
| ENCFF991XSG.tabix.bed.gz.tbi.dvc | 109.0 B | b84aed51af8b0abf6d3247182f515dc0 |
| genomic_resource.yaml | 5.49 KB | c54ddef1a11e035a369328757e0047f4 |
| genomic_resource_original.yaml | 5.33 KB | 3b36ce31a2db5c4502a254e6048194dd |
| statistics/ |