TF_ChIP-seq_ENCSR783EPA
TF_ChIP-seq ENCSR783EPA [biosample_summary="Homo sapiens K562 genetically modified (insertion) using CRISPR targeting H. sapiens TBPL1" and target="TBPL1"]
×
| Id: | TF_ChIP-seq/ENCSR783EPA |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR783EPA [biosamplesummary="Homo sapiens K562 genetically modified (insertion) using CRISPR targeting H. sapiens TBPL1" and target="TBPL1"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: genetically modified (insertion) using CRISPR targeting H. sapiens TBPL1 output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN878VSK|/analyses/ENCAN878VSK/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_internal_action: Released analysis {ENCAN878VSK|/analyses/ENCAN878VSK/} has in progress subobject document {e93ed04e-af0e-4e79-85e6-6bfd7e42a4d2|/documents/e93ed04e-af0e-4e79-85e6-6bfd7e42a4d2/} audit_warning: Processed alignments file {ENCFF409OYO|/files/ENCFF409OYO/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline has 19442296 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting TBPL1-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 {ENCFF409OYO|/files/ENCFF409OYO/} processed by ChIP-seq ENCODE4 v1.4.0 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 {ENCFF409OYO|/files/ENCFF409OYO/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC2 value of 7.69. 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 {ENCFF393BEQ|/files/ENCFF393BEQ/} processed by ChIP-seq ENCODE4 v1.4.0 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 {ENCFF393BEQ|/files/ENCFF393BEQ/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC2 value of 8.89. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF927NEU|/files/ENCFF927NEU/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline have a rescue ratio of 1.16 and a self consistency ratio of 2.32. 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 {ENCFF544VTV|/files/ENCFF544VTV/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline have a rescue ratio of 1.16 and a self consistency ratio of 2.32. 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_ENCSR783EPA | float |
TF_ChIP-seq_ENCSR783EPA |
TF_ChIP-seq ENCSR783EPA [biosample_summary="Homo sapiens K562 genetically modified (insertion) using CRISPR targeting H. sapiens TBPL1" and target="TBPL1"]
|
|
[14.4, 473] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF927NEU.bed.gz | 108.92 KB | 45cf9da8056e6ec0230767e76d77c9bc |
| ENCFF927NEU.bed.gz.dvc | 100.0 B | 172a94f6490dfd54c36925b8ecc3949c |
| ENCFF927NEU.tabix.bed.gz | 78.89 KB | 2ae8d0dfd4eafc404ed2801766942149 |
| ENCFF927NEU.tabix.bed.gz.dvc | 105.0 B | 28f02d7493ad85a326fdd2f0352f14e3 |
| ENCFF927NEU.tabix.bed.gz.tbi | 49.57 KB | db279f84b75f2685cfbe4091260ef318 |
| ENCFF927NEU.tabix.bed.gz.tbi.dvc | 109.0 B | 4677764355d359572536d31a5ffb3b5d |
| genomic_resource.yaml | 5.97 KB | eda167e83560a1351643e5cb17dc6e72 |
| genomic_resource_original.yaml | 5.8 KB | 13acfc6736806eadb1780623a7a08951 |
| statistics/ |