TF_ChIP-seq_ENCSR625XAV
TF_ChIP-seq ENCSR625XAV [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB8A" and target="ZBTB8A"]
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| Id: | TF_ChIP-seq/ENCSR625XAV |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR625XAV [biosamplesummary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB8A" and target="ZBTB8A"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB8A output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN850QZE|/analyses/ENCAN850QZE/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_internal_action: Released analysis {ENCAN850QZE|/analyses/ENCAN850QZE/} has in progress subobject document {70cf5a59-8f9d-435e-9f0e-65f1b2a2d989|/documents/70cf5a59-8f9d-435e-9f0e-65f1b2a2d989/} audit_warning: Processed alignments file {ENCFF760GWO|/files/ENCFF760GWO/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline has 18327712 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting ZBTB8A-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 {ENCFF991ASF|/files/ENCFF991ASF/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC1 value of 0.81. 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 {ENCFF991ASF|/files/ENCFF991ASF/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC2 value of 5.33. 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 {ENCFF760GWO|/files/ENCFF760GWO/} processed by ChIP-seq ENCODE4 v1.4.0 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 {ENCFF760GWO|/files/ENCFF760GWO/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC2 value of 5.46. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF421QJP|/files/ENCFF421QJP/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline have a rescue ratio of 1.63 and a self consistency ratio of 4.70. 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 {ENCFF860JVN|/files/ENCFF860JVN/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline have a rescue ratio of 1.63 and a self consistency ratio of 4.70. 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_ENCSR625XAV | float |
TF_ChIP-seq_ENCSR625XAV |
TF_ChIP-seq ENCSR625XAV [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZBTB8A" and target="ZBTB8A"]
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[9.84, 436] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF421QJP.bed.gz | 83.36 KB | d47e62d21bc4e5bc8ebf1d617779247c |
| ENCFF421QJP.bed.gz.dvc | 99.0 B | 1892d808051172f04babda4bc86a9f6a |
| ENCFF421QJP.tabix.bed.gz | 65.26 KB | 0b497f7154d1dce1fc3219733506fd6a |
| ENCFF421QJP.tabix.bed.gz.dvc | 105.0 B | 13f2bc4661cd5cab76237bccc7f3c41f |
| ENCFF421QJP.tabix.bed.gz.tbi | 35.8 KB | 88fa34348c6da8d955b284fbc8dc993a |
| ENCFF421QJP.tabix.bed.gz.tbi.dvc | 109.0 B | c5e86263977a187ee53e223e7fcb8e4f |
| genomic_resource.yaml | 5.98 KB | 759fa50d02680f8db0ff35466fdb3085 |
| genomic_resource_original.yaml | 5.81 KB | cf92c8e28109aa69b674633217da5128 |
| statistics/ |