TF_ChIP-seq_ENCSR471VAY
TF_ChIP-seq ENCSR471VAY [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF484" and target="ZNF484"]
×
| Id: | TF_ChIP-seq/ENCSR471VAY |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR471VAY [biosamplesummary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF484" and target="ZNF484"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: genetically modified (insertion) using CRISPR targeting H. sapiens ZNF484 output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN832VZL|/analyses/ENCAN832VZL/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_internal_action: Released analysis {ENCAN832VZL|/analyses/ENCAN832VZL/} has in progress subobject document {81fb5154-55b3-411f-9a12-2151b3fcc1e4|/documents/81fb5154-55b3-411f-9a12-2151b3fcc1e4/} audit_warning: Processed alignments file {ENCFF491QHP|/files/ENCFF491QHP/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline has 19049660 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting ZNF484-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 {ENCFF464PEY|/files/ENCFF464PEY/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.90. 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 {ENCFF464PEY|/files/ENCFF464PEY/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 9.96. 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 {ENCFF491QHP|/files/ENCFF491QHP/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.84. 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 {ENCFF491QHP|/files/ENCFF491QHP/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 6.42. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF388IZF|/files/ENCFF388IZF/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline have a rescue ratio of 1.98 and a self consistency ratio of 5.28. 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: |
|
| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR471VAY | float |
TF_ChIP-seq_ENCSR471VAY |
TF_ChIP-seq ENCSR471VAY [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF484" and target="ZNF484"]
|
|
[6.38, 276] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF388IZF.bed.gz | 43.01 KB | c084725be446f1f80e180464e1e610a7 |
| ENCFF388IZF.bed.gz.dvc | 99.0 B | 621f796135818e5fddc80cb428f246ce |
| ENCFF388IZF.tabix.bed.gz | 29.94 KB | 77a30c9819ae3e3736a9837d4d62dee2 |
| ENCFF388IZF.tabix.bed.gz.dvc | 105.0 B | 926fa78b7933d44c0cdf870780609e59 |
| ENCFF388IZF.tabix.bed.gz.tbi | 22.88 KB | aec7461a9c3819e12b745ae2400a3749 |
| ENCFF388IZF.tabix.bed.gz.tbi.dvc | 109.0 B | dd557eb6b0a9277868ed9bc6300771f6 |
| genomic_resource.yaml | 5.46 KB | 81c73c1a7b358d3047931afe08678a86 |
| genomic_resource_original.yaml | 5.29 KB | 1391cae640b472f9890985c53bddf6c9 |
| statistics/ |