TF_ChIP-seq_ENCSR598NQU
TF_ChIP-seq ENCSR598NQU [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NAIF1" and target="NAIF1"]
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| Id: | TF_ChIP-seq/ENCSR598NQU |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR598NQU [biosamplesummary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NAIF1" and target="NAIF1"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: genetically modified (insertion) using CRISPR targeting H. sapiens NAIF1 output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN739CSG|/analyses/ENCAN739CSG/} has in progress subobject document {9a5c3bd2-b8ba-4e73-84db-8d7942fe26ee|/documents/9a5c3bd2-b8ba-4e73-84db-8d7942fe26ee/} audit_internal_action: Released analysis {ENCAN739CSG|/analyses/ENCAN739CSG/} 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 {ENCFF690KDL|/files/ENCFF690KDL/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline was generated from a library with PBC1 value of 0.83. 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 {ENCFF690KDL|/files/ENCFF690KDL/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline was generated from a library with PBC2 value of 5.89. 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 {ENCFF672BBN|/files/ENCFF672BBN/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 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 {ENCFF672BBN|/files/ENCFF672BBN/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline was generated from a library with PBC2 value of 7.17. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF287TUA|/files/ENCFF287TUA/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline have a rescue ratio of 1.19 and a self consistency ratio of 2.85. 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 {ENCFF291NIS|/files/ENCFF291NIS/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline have a rescue ratio of 1.19 and a self consistency ratio of 2.85. 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_ENCSR598NQU | float |
TF_ChIP-seq_ENCSR598NQU |
TF_ChIP-seq ENCSR598NQU [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens NAIF1" and target="NAIF1"]
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[11.5, 1.04e+03] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF287TUA.bed.gz | 227.62 KB | d112210c06381d60008cf267d18d507b |
| ENCFF287TUA.bed.gz.dvc | 100.0 B | 9557689ef1ec284f3cb4d6f09905caa1 |
| ENCFF287TUA.tabix.bed.gz | 182.49 KB | c15264c99d3f42b779c9ea86f3e73799 |
| ENCFF287TUA.tabix.bed.gz.dvc | 106.0 B | 8d9ebf905def38d22212994f7b2911ce |
| ENCFF287TUA.tabix.bed.gz.tbi | 74.71 KB | 6193274634261877f19868e33ca1922b |
| ENCFF287TUA.tabix.bed.gz.tbi.dvc | 109.0 B | f864e1b979fa39d41a2859ec0cbeb683 |
| genomic_resource.yaml | 5.49 KB | ba7f5c1308e2f5a32b5f36b7372ad8ec |
| genomic_resource_original.yaml | 5.32 KB | c8ea547f6061778ed76f53dbb429fe93 |
| statistics/ |