TF_ChIP-seq_ENCSR204ALX
TF_ChIP-seq ENCSR204ALX [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF431" and target="ZNF431"]
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| Id: | TF_ChIP-seq/ENCSR204ALX |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR204ALX [biosamplesummary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF431" and target="ZNF431"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: genetically modified (insertion) using CRISPR targeting H. sapiens ZNF431 output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN043TCW|/analyses/ENCAN043TCW/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_warning: Processed alignments file {ENCFF275CAP|/files/ENCFF275CAP/} processed by ChIP-seq ENCODE4 v1.9.0 GRCh38 pipeline has 18350278 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting ZNF431-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 {ENCFF275CAP|/files/ENCFF275CAP/} processed by ChIP-seq ENCODE4 v1.9.0 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 {ENCFF275CAP|/files/ENCFF275CAP/} processed by ChIP-seq ENCODE4 v1.9.0 GRCh38 pipeline was generated from a library with PBC2 value of 7.89. 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 {ENCFF351VUQ|/files/ENCFF351VUQ/} processed by ChIP-seq ENCODE4 v1.9.0 GRCh38 pipeline was generated from a library with PBC1 value of 0.88. 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 {ENCFF351VUQ|/files/ENCFF351VUQ/} processed by ChIP-seq ENCODE4 v1.9.0 GRCh38 pipeline was generated from a library with PBC2 value of 8.14. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF353STA|/files/ENCFF353STA/} processed by ChIP-seq ENCODE4 v1.9.0 GRCh38 pipeline have a rescue ratio of 1.22 and a self consistency ratio of 2.22. 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_ENCSR204ALX | float |
TF_ChIP-seq_ENCSR204ALX |
TF_ChIP-seq ENCSR204ALX [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF431" and target="ZNF431"]
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[8.33, 463] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF353STA.bed.gz | 241.78 KB | 455680138db4ccde6e3fefecde2b1d16 |
| ENCFF353STA.bed.gz.dvc | 100.0 B | 919df22ff2a078c6c66d24cd4b5aa9e4 |
| ENCFF353STA.tabix.bed.gz | 181.8 KB | 4cdc86c6894b47070c5170e5eb37aaba |
| ENCFF353STA.tabix.bed.gz.dvc | 106.0 B | fdcf501bd8677cabff718f0515aa9c2e |
| ENCFF353STA.tabix.bed.gz.tbi | 85.6 KB | 56ece034a7d7f231092380e2da03af31 |
| ENCFF353STA.tabix.bed.gz.tbi.dvc | 109.0 B | 3e693dfd0f821a9b87c3c5e43525c234 |
| genomic_resource.yaml | 5.25 KB | 8877a0e25e872303f5ef5f6a3d3faf5b |
| genomic_resource_original.yaml | 5.08 KB | a5cc2ca821564494ee292bc30b1a0249 |
| statistics/ |