TF_ChIP-seq_ENCSR436RQS
TF_ChIP-seq ENCSR436RQS [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF577" and target="ZNF577"]
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| Id: | TF_ChIP-seq/ENCSR436RQS |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR436RQS [biosamplesummary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF577" and target="ZNF577"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: genetically modified (insertion) using CRISPR targeting H. sapiens ZNF577 output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN905BOY|/analyses/ENCAN905BOY/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_internal_action: Released analysis {ENCAN905BOY|/analyses/ENCAN905BOY/} has in progress subobject document {606886e8-bf8d-408b-ae8a-8b595566fac0|/documents/606886e8-bf8d-408b-ae8a-8b595566fac0/} audit_warning: Processed alignments file {ENCFF035WHR|/files/ENCFF035WHR/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline has 18793529 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting ZNF577-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 {ENCFF798YMG|/files/ENCFF798YMG/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC1 value of 0.83. 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 {ENCFF798YMG|/files/ENCFF798YMG/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC2 value of 5.93. 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 {ENCFF035WHR|/files/ENCFF035WHR/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC1 value of 0.83. 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 {ENCFF035WHR|/files/ENCFF035WHR/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC2 value of 5.84. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF535BYF|/files/ENCFF535BYF/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline have a rescue ratio of 1.55 and a self consistency ratio of 4.53. 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 {ENCFF980BRD|/files/ENCFF980BRD/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline have a rescue ratio of 1.55 and a self consistency ratio of 4.53. 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_ENCSR436RQS | float |
TF_ChIP-seq_ENCSR436RQS |
TF_ChIP-seq ENCSR436RQS [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF577" and target="ZNF577"]
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[6.84, 301] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF535BYF.bed.gz | 38.26 KB | b1e899dbf02ff9fc92502f01810a66b7 |
| ENCFF535BYF.bed.gz.dvc | 99.0 B | 26740ba490dbaaa318b67ee00b1a21fa |
| ENCFF535BYF.tabix.bed.gz | 27.05 KB | 865766b151eff2ec03b99ba7db63dfc9 |
| ENCFF535BYF.tabix.bed.gz.dvc | 105.0 B | ea38c69fff3e06b3960cb2f179c15228 |
| ENCFF535BYF.tabix.bed.gz.tbi | 20.64 KB | de4b7606d241f0f75709dd9982de07ab |
| ENCFF535BYF.tabix.bed.gz.tbi.dvc | 109.0 B | c51576a3951e134084f3355278162665 |
| genomic_resource.yaml | 5.98 KB | 7031284e6e7c2ed8a4f4907e478cb57a |
| genomic_resource_original.yaml | 5.81 KB | c3552d2d9295bb9b37a204788f38476a |
| statistics/ |