TF_ChIP-seq_ENCSR633HRJ
TF_ChIP-seq ENCSR633HRJ [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HNF1A" and target="HNF1A"]
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| Id: | TF_ChIP-seq/ENCSR633HRJ |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR633HRJ [biosamplesummary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HNF1A" and target="HNF1A"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: genetically modified (insertion) using CRISPR targeting H. sapiens HNF1A output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN789BJY|/analyses/ENCAN789BJY/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_internal_action: Released analysis {ENCAN789BJY|/analyses/ENCAN789BJY/} has in progress subobject document {1d9cbc85-af33-45c1-b1ca-22450426a54b|/documents/1d9cbc85-af33-45c1-b1ca-22450426a54b/} 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 {ENCFF327GEM|/files/ENCFF327GEM/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 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 {ENCFF327GEM|/files/ENCFF327GEM/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC2 value of 6.78. 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 {ENCFF154KZO|/files/ENCFF154KZO/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 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 {ENCFF154KZO|/files/ENCFF154KZO/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC2 value of 6.73. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF767MSS|/files/ENCFF767MSS/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline have a rescue ratio of 1.82 and a self consistency ratio of 4.72. 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 {ENCFF540TRC|/files/ENCFF540TRC/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline have a rescue ratio of 1.82 and a self consistency ratio of 4.72. 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_ENCSR633HRJ | float |
TF_ChIP-seq_ENCSR633HRJ |
TF_ChIP-seq ENCSR633HRJ [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens HNF1A" and target="HNF1A"]
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[10.1, 663] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF767MSS.bed.gz | 421.81 KB | b8ba4e5306911dd10b739888a2cafc67 |
| ENCFF767MSS.bed.gz.dvc | 100.0 B | ba0b9e1727e4084fcb326507f9f672a5 |
| ENCFF767MSS.tabix.bed.gz | 346.62 KB | 9f28c2975a7a4d3cfe891660914ebb18 |
| ENCFF767MSS.tabix.bed.gz.dvc | 106.0 B | a870f58bbcdf2c4fce1fc37449cde9aa |
| ENCFF767MSS.tabix.bed.gz.tbi | 134.69 KB | e4f3f7a528156531d7309673f24fa0d9 |
| ENCFF767MSS.tabix.bed.gz.tbi.dvc | 110.0 B | e42a4d58654e2c8b4390a1ef44d8267f |
| genomic_resource.yaml | 5.49 KB | 0db2a94187f655c82096cc8219865431 |
| genomic_resource_original.yaml | 5.32 KB | 0b76c3597400bbc95959fe7cf4ec0e92 |
| statistics/ |