TF_ChIP-seq_ENCSR068QXO
TF_ChIP-seq ENCSR068QXO [biosample_summary="Homo sapiens K562 genetically modified (insertion) using CRISPR targeting H. sapiens SMAD4" and target="SMAD4"]
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| Id: | TF_ChIP-seq/ENCSR068QXO |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR068QXO [biosamplesummary="Homo sapiens K562 genetically modified (insertion) using CRISPR targeting H. sapiens SMAD4" and target="SMAD4"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: genetically modified (insertion) using CRISPR targeting H. sapiens SMAD4 output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN317QDP|/analyses/ENCAN317QDP/} 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 {ENCFF822MFK|/files/ENCFF822MFK/} processed by ChIP-seq ENCODE4 v1.8.0 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 {ENCFF822MFK|/files/ENCFF822MFK/} processed by ChIP-seq ENCODE4 v1.8.0 GRCh38 pipeline was generated from a library with PBC2 value of 6.54. 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 {ENCFF943MOY|/files/ENCFF943MOY/} processed by ChIP-seq ENCODE4 v1.8.0 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 {ENCFF943MOY|/files/ENCFF943MOY/} processed by ChIP-seq ENCODE4 v1.8.0 GRCh38 pipeline was generated from a library with PBC2 value of 7.69. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF934NEX|/files/ENCFF934NEX/} processed by ChIP-seq ENCODE4 v1.8.0 GRCh38 pipeline have a rescue ratio of 1.37 and a self consistency ratio of 4.11. 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_ENCSR068QXO | float |
TF_ChIP-seq_ENCSR068QXO |
TF_ChIP-seq ENCSR068QXO [biosample_summary="Homo sapiens K562 genetically modified (insertion) using CRISPR targeting H. sapiens SMAD4" and target="SMAD4"]
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[8.44, 546] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF934NEX.bed.gz | 151.98 KB | 513fe3c2e974048735d5b4b967cc58dc |
| ENCFF934NEX.bed.gz.dvc | 100.0 B | 1fc9c330c1a2688a1183a3e2f0dfb4df |
| ENCFF934NEX.tabix.bed.gz | 108.12 KB | 2fdc95b5f044c34ac21ff3133e767dfa |
| ENCFF934NEX.tabix.bed.gz.dvc | 106.0 B | c45b314ba302712393fbf24954af62d4 |
| ENCFF934NEX.tabix.bed.gz.tbi | 61.4 KB | 42d13743094cdb9fc22c5afdbbe470ee |
| ENCFF934NEX.tabix.bed.gz.tbi.dvc | 109.0 B | 595981681a35be9595fc2f0aa313f284 |
| genomic_resource.yaml | 4.75 KB | d0d833109c3d17283d4753197a391f50 |
| genomic_resource_original.yaml | 4.59 KB | b7518ccc0f5781612ff0cbc42e1c8001 |
| statistics/ |