TF_ChIP-seq_ENCSR225UTR
TF_ChIP-seq ENCSR225UTR [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens IRX3" and target="IRX3"]
×
| Id: | TF_ChIP-seq/ENCSR225UTR |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR225UTR [biosamplesummary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens IRX3" and target="IRX3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: genetically modified (insertion) using CRISPR targeting H. sapiens IRX3 output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN120KPZ|/analyses/ENCAN120KPZ/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_warning: Processed alignments file {ENCFF780OSI|/files/ENCFF780OSI/} processed by ChIP-seq ENCODE4 v1.8.1 GRCh38 pipeline has 19623870 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting IRX3-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 {ENCFF780OSI|/files/ENCFF780OSI/} processed by ChIP-seq ENCODE4 v1.8.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.89. 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 {ENCFF780OSI|/files/ENCFF780OSI/} processed by ChIP-seq ENCODE4 v1.8.1 GRCh38 pipeline was generated from a library with PBC2 value of 8.85. 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 {ENCFF549ZOX|/files/ENCFF549ZOX/} processed by ChIP-seq ENCODE4 v1.8.1 GRCh38 pipeline was generated from a library with PBC2 value of 9.94. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF784ICI|/files/ENCFF784ICI/} processed by ChIP-seq ENCODE4 v1.8.1 GRCh38 pipeline have a rescue ratio of 1.28 and a self consistency ratio of 2.90. 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_ENCSR225UTR | float |
TF_ChIP-seq_ENCSR225UTR |
TF_ChIP-seq ENCSR225UTR [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens IRX3" and target="IRX3"]
|
|
[8.15, 439] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF784ICI.bed.gz | 167.79 KB | 45907969f1ef1a910d4abf75076ecac2 |
| ENCFF784ICI.bed.gz.dvc | 100.0 B | 945853bdc2bf01e598c5541b1c1c18c7 |
| ENCFF784ICI.tabix.bed.gz | 127.9 KB | 50274fb1e3f14d12a5f01ed574f64683 |
| ENCFF784ICI.tabix.bed.gz.dvc | 106.0 B | 1588e7fdf490e44b87c92dc2a148847d |
| ENCFF784ICI.tabix.bed.gz.tbi | 63.0 KB | cc877d0c5cd4aa041412fa31a4ab1ebd |
| ENCFF784ICI.tabix.bed.gz.tbi.dvc | 109.0 B | b88af76b168f3abf44d886f15b3a6c07 |
| genomic_resource.yaml | 4.58 KB | 5cee2eef602d7bd9c54eb3ffc7c9a62f |
| genomic_resource_original.yaml | 4.42 KB | ecdf353772acc16f95198ea30d0db913 |
| statistics/ |