TF_ChIP-seq_ENCSR240XWM
TF_ChIP-seq ENCSR240XWM [biosample_summary="Homo sapiens HEK293T" and target="LEF1"]
×
| Id: | TF_ChIP-seq/ENCSR240XWM |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR240XWM [biosamplesummary="Homo sapiens HEK293T" and target="LEF1"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: optimal IDR thresholded peaks audit_internal_action: Archived analysis {ENCAN840HNE|/analyses/ENCAN840HNE/} has in progress subobject quality standard {encode3-tf-chip|/quality-standards/encode3-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 {ENCFF761PRG|/files/ENCFF761PRG/} processed by ChIP-seq ENCODE3 hg19 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 {ENCFF761PRG|/files/ENCFF761PRG/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 8.07. 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 {ENCFF288CMG|/files/ENCFF288CMG/} processed by ChIP-seq ENCODE3 hg19 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 {ENCFF288CMG|/files/ENCFF288CMG/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 8.45. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF953NPJ|/files/ENCFF953NPJ/}, {ENCFF333UCS|/files/ENCFF333UCS/} processed by ChIP-seq ENCODE3 hg19 pipeline have a rescue ratio of 1.69 and a self consistency ratio of 3.02. 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 {ENCFF262WBO|/files/ENCFF262WBO/}, {ENCFF417SIR|/files/ENCFF417SIR/} processed by ChIP-seq ENCODE3 hg19 pipeline have a rescue ratio of 1.69 and a self consistency ratio of 3.02. 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_ENCSR240XWM | float |
TF_ChIP-seq_ENCSR240XWM |
TF_ChIP-seq ENCSR240XWM [biosample_summary="Homo sapiens HEK293T" and target="LEF1"]
|
|
[16.6, 1.08e+03] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF333UCS.bed.gz | 65.95 KB | 9c024f81116a4662a6b618d79c6b16c0 |
| ENCFF333UCS.bed.gz.dvc | 99.0 B | d08ff0ec06cefa10fc7286e14794fc2a |
| ENCFF333UCS.tabix.bed.gz | 44.24 KB | 17281bb242d8d2c4620fb27f70474590 |
| ENCFF333UCS.tabix.bed.gz.dvc | 105.0 B | 94e631c83878be40c3988ed172c03978 |
| ENCFF333UCS.tabix.bed.gz.tbi | 35.98 KB | 75003d459bc86ee0a5d8c34655fb174c |
| ENCFF333UCS.tabix.bed.gz.tbi.dvc | 109.0 B | 740a822f62f10891240b27ed63520ee7 |
| genomic_resource.yaml | 5.07 KB | 0e46f892919f7f1fd670d54b9a8e3cd1 |
| genomic_resource_original.yaml | 4.98 KB | 8a3113cd3667edb8c9d21eacd0063840 |
| statistics/ |