TF_ChIP-seq_ENCSR597QZQ
TF_ChIP-seq ENCSR597QZQ [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens USF3" and target="KIAA2018"]
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| Id: | TF_ChIP-seq/ENCSR597QZQ |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR597QZQ [biosamplesummary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens USF3" and target="KIAA2018"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: genetically modified (insertion) using CRISPR targeting H. sapiens USF3 output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN722YXZ|/analyses/ENCAN722YXZ/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_internal_action: Released analysis {ENCAN722YXZ|/analyses/ENCAN722YXZ/} has in progress subobject document {d76fceb0-1fc2-4534-9a11-ebaecb4ec9a3|/documents/d76fceb0-1fc2-4534-9a11-ebaecb4ec9a3/} 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 {ENCFF050FMJ|/files/ENCFF050FMJ/} processed by ChIP-seq ENCODE4 v1.5.0 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 {ENCFF050FMJ|/files/ENCFF050FMJ/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline was generated from a library with PBC2 value of 6.50. 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 {ENCFF232BVJ|/files/ENCFF232BVJ/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 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 {ENCFF232BVJ|/files/ENCFF232BVJ/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline was generated from a library with PBC2 value of 5.61. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF854ZPK|/files/ENCFF854ZPK/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline have a rescue ratio of 1.24 and a self consistency ratio of 2.39. 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 {ENCFF010CPF|/files/ENCFF010CPF/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline have a rescue ratio of 1.24 and a self consistency ratio of 2.39. 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_ENCSR597QZQ | float |
TF_ChIP-seq_ENCSR597QZQ |
TF_ChIP-seq ENCSR597QZQ [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens USF3" and target="KIAA2018"]
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[8.27, 270] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF854ZPK.bed.gz | 70.48 KB | d165e6e579275e461d4878f16eecbd62 |
| ENCFF854ZPK.bed.gz.dvc | 99.0 B | e5d285e1f324b70a07ef912ddcd27cc6 |
| ENCFF854ZPK.tabix.bed.gz | 53.14 KB | 2dba022de58efe25b07cceda718f4b9a |
| ENCFF854ZPK.tabix.bed.gz.dvc | 105.0 B | d5c3ec3262d105087c2df6ce399e4858 |
| ENCFF854ZPK.tabix.bed.gz.tbi | 31.24 KB | a09a20a83cd8688478df5f0e98773f40 |
| ENCFF854ZPK.tabix.bed.gz.tbi.dvc | 109.0 B | 7dff6ac21ec92b5b72ea7f44bf818172 |
| genomic_resource.yaml | 5.49 KB | 30044f24bd9c2dbec22c5ce8bb371690 |
| genomic_resource_original.yaml | 5.32 KB | 6a59f3f458f3282a778359210caebaba |
| statistics/ |