TF_ChIP-seq_ENCSR849FVL
TF_ChIP-seq ENCSR849FVL [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GFI1" and target="GFI1"]
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| Id: | TF_ChIP-seq/ENCSR849FVL |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR849FVL [biosamplesummary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GFI1" and target="GFI1"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: genetically modified (insertion) using CRISPR targeting H. sapiens GFI1 output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN116FBG|/analyses/ENCAN116FBG/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_internal_action: Released analysis {ENCAN116FBG|/analyses/ENCAN116FBG/} has in progress subobject document {8b740952-c6ab-44d4-b103-f070fc4a472a|/documents/8b740952-c6ab-44d4-b103-f070fc4a472a/} 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 {ENCFF365ZTB|/files/ENCFF365ZTB/} 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 {ENCFF365ZTB|/files/ENCFF365ZTB/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline was generated from a library with PBC2 value of 5.56. 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 {ENCFF970SUW|/files/ENCFF970SUW/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline was generated from a library with PBC1 value of 0.87. 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 {ENCFF970SUW|/files/ENCFF970SUW/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline was generated from a library with PBC2 value of 7.71. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF999HNJ|/files/ENCFF999HNJ/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline have a rescue ratio of 1.23 and a self consistency ratio of 2.10. 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 {ENCFF472INF|/files/ENCFF472INF/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline have a rescue ratio of 1.23 and a self consistency ratio of 2.10. 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_ENCSR849FVL | float |
TF_ChIP-seq_ENCSR849FVL |
TF_ChIP-seq ENCSR849FVL [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens GFI1" and target="GFI1"]
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[10.7, 867] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF999HNJ.bed.gz | 471.91 KB | 40808796c887a8e2a157c1389ea3ecb5 |
| ENCFF999HNJ.bed.gz.dvc | 100.0 B | 0edcfc43c8fc873635332a1577614c5b |
| ENCFF999HNJ.tabix.bed.gz | 367.87 KB | 7e64600179c55db6e59dec6d6f8199f8 |
| ENCFF999HNJ.tabix.bed.gz.dvc | 106.0 B | c33369b82d1a0f393d1495b43d42bc49 |
| ENCFF999HNJ.tabix.bed.gz.tbi | 137.59 KB | 982c19b5210445ea770c3638c3567e1a |
| ENCFF999HNJ.tabix.bed.gz.tbi.dvc | 110.0 B | 408080700608f8e0fc068c20821698c0 |
| genomic_resource.yaml | 5.48 KB | 8a87678f7b7d0a6060e51e74bbf159c3 |
| genomic_resource_original.yaml | 5.32 KB | e3e0a1fdf650634498a6d78377aae317 |
| statistics/ |