TF_ChIP-seq_ENCSR842SRB
TF_ChIP-seq ENCSR842SRB [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF350" and target="ZNF350"]
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| Id: | TF_ChIP-seq/ENCSR842SRB |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR842SRB [biosamplesummary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF350" and target="ZNF350"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: genetically modified (insertion) using CRISPR targeting H. sapiens ZNF350 output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN029GGR|/analyses/ENCAN029GGR/} has replaced subobject file {5794967c-557a-4c2a-a11a-24f778ef304b|/files/5794967c-557a-4c2a-a11a-24f778ef304b/} audit_internal_action: Released analysis {ENCAN029GGR|/analyses/ENCAN029GGR/} has in progress subobject document {3fa780d4-ace3-4b5c-958a-1ab8c5109e99|/documents/3fa780d4-ace3-4b5c-958a-1ab8c5109e99/} audit_internal_action: Released analysis {ENCAN029GGR|/analyses/ENCAN029GGR/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_internal_action: Released analysis {ENCAN029GGR|/analyses/ENCAN029GGR/} has replaced subobject file {d7186e80-acb1-45a0-b481-623ea57c2c7d|/files/d7186e80-acb1-45a0-b481-623ea57c2c7d/} audit_internal_action: Released analysis {ENCAN029GGR|/analyses/ENCAN029GGR/} has replaced subobject file {84b1dedb-dc25-4090-9ac8-a9a2f7bd9c3f|/files/84b1dedb-dc25-4090-9ac8-a9a2f7bd9c3f/} audit_internal_action: Released file {ENCFF518ZKO|/files/ENCFF518ZKO/} has deleted subobject file {ENCFF771CIL|/files/ENCFF771CIL/} audit_warning: Processed alignments file {ENCFF214OGW|/files/ENCFF214OGW/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline has 19734715 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting ZNF350-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 {ENCFF214OGW|/files/ENCFF214OGW/} processed by ChIP-seq ENCODE4 v1.4.0 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 {ENCFF214OGW|/files/ENCFF214OGW/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC2 value of 7.05. 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 {ENCFF886HUL|/files/ENCFF886HUL/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC1 value of 0.89. 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 {ENCFF886HUL|/files/ENCFF886HUL/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC2 value of 9.08. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF518ZKO|/files/ENCFF518ZKO/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline have a rescue ratio of 1.17 and a self consistency ratio of 3.15. 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 {ENCFF595LWL|/files/ENCFF595LWL/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline have a rescue ratio of 1.17 and a self consistency ratio of 3.15. 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_ENCSR842SRB | float |
TF_ChIP-seq_ENCSR842SRB |
TF_ChIP-seq ENCSR842SRB [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF350" and target="ZNF350"]
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[11.7, 444] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF518ZKO.bed.gz | 446.28 KB | b464297f0bb8f89dc7a5a8d0d91782f9 |
| ENCFF518ZKO.bed.gz.dvc | 100.0 B | 382379680a3e98f81a71bb7a31741054 |
| ENCFF518ZKO.tabix.bed.gz | 395.52 KB | 01f5455b5cf368c6c40cca395b381c5a |
| ENCFF518ZKO.tabix.bed.gz.dvc | 106.0 B | a67942749acbb55925324da38c7983cc |
| ENCFF518ZKO.tabix.bed.gz.tbi | 129.64 KB | 1ab81fc21bb78ea05a9826e4d114b1c1 |
| ENCFF518ZKO.tabix.bed.gz.tbi.dvc | 110.0 B | 2ec97575a196e098145bc5073972d196 |
| genomic_resource.yaml | 6.73 KB | 0c6b99d5b77529cb245a3ad0a91e702b |
| genomic_resource_original.yaml | 6.56 KB | c0704cbb6279d7db62ee71764ec63fec |
| statistics/ |