TF_ChIP-seq_ENCSR731UPJ
TF_ChIP-seq ENCSR731UPJ [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZFP41" and target="ZFP41"]
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| Id: | TF_ChIP-seq/ENCSR731UPJ |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR731UPJ [biosamplesummary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZFP41" and target="ZFP41"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: genetically modified (insertion) using CRISPR targeting H. sapiens ZFP41 output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN945HDK|/analyses/ENCAN945HDK/} has in progress subobject document {2d6dddcd-f715-4ea5-84d6-44c79e77df8f|/documents/2d6dddcd-f715-4ea5-84d6-44c79e77df8f/} audit_internal_action: Released analysis {ENCAN945HDK|/analyses/ENCAN945HDK/} 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 {ENCFF882JPD|/files/ENCFF882JPD/} processed by ChIP-seq ENCODE4 v1.4.0 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 {ENCFF882JPD|/files/ENCFF882JPD/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC2 value of 8.42. 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 {ENCFF055LLF|/files/ENCFF055LLF/} processed by ChIP-seq ENCODE4 v1.4.0 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 {ENCFF055LLF|/files/ENCFF055LLF/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC2 value of 8.32. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF853YIS|/files/ENCFF853YIS/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline have a rescue ratio of 1.09 and a self consistency ratio of 3.95. 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 {ENCFF817WHL|/files/ENCFF817WHL/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline have a rescue ratio of 1.09 and a self consistency ratio of 3.95. 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_ENCSR731UPJ | float |
TF_ChIP-seq_ENCSR731UPJ |
TF_ChIP-seq ENCSR731UPJ [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZFP41" and target="ZFP41"]
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[9.94, 417] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF853YIS.bed.gz | 114.8 KB | 83dce076c2e1f5fcc4adbc546f1a2c64 |
| ENCFF853YIS.bed.gz.dvc | 100.0 B | 8fcb1af608a0c29feffc55cc62aca932 |
| ENCFF853YIS.tabix.bed.gz | 84.86 KB | 08211fb0f1851e65156a8ddc629c4392 |
| ENCFF853YIS.tabix.bed.gz.dvc | 105.0 B | 45b6437ed50e1b62f2a9b4191f24ab8f |
| ENCFF853YIS.tabix.bed.gz.tbi | 47.92 KB | c73c88bbef3e29ac68a4e4f9b2293c9c |
| ENCFF853YIS.tabix.bed.gz.tbi.dvc | 109.0 B | 1a8e518c11ef1fcd2f83b0e3f3db4fa8 |
| genomic_resource.yaml | 5.49 KB | 9c53333c3ff362ba9f75a4e520398ca0 |
| genomic_resource_original.yaml | 5.32 KB | 070dadecf5cfbb731c02de3b3acaeeeb |
| statistics/ |