TF_ChIP-seq_ENCSR832OGB
TF_ChIP-seq ENCSR832OGB [biosample_summary="Homo sapiens K562" and target="LEF1"]
×
| Id: | TF_ChIP-seq/ENCSR832OGB |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR832OGB [biosamplesummary="Homo sapiens K562" and target="LEF1"] |
| Description: |
status: released biological_replicates: Rep 3, Rep 4 summary: output_type: optimal IDR thresholded peaks audit_internal_action: Archived analysis {ENCAN932TGL|/analyses/ENCAN932TGL/} 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 {ENCFF584YHO|/files/ENCFF584YHO/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC1 value of 0.80. 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 {ENCFF584YHO|/files/ENCFF584YHO/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 4.73. 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 {ENCFF890PMJ|/files/ENCFF890PMJ/} processed by ChIP-seq ENCODE3 hg19 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 {ENCFF890PMJ|/files/ENCFF890PMJ/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 8.74. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF866QXR|/files/ENCFF866QXR/}, {ENCFF043YZF|/files/ENCFF043YZF/} processed by ChIP-seq ENCODE3 hg19 pipeline have a rescue ratio of 1.86 and a self consistency ratio of 2.80. 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 {ENCFF561MCO|/files/ENCFF561MCO/}, {ENCFF384ZSB|/files/ENCFF384ZSB/} processed by ChIP-seq ENCODE3 hg19 pipeline have a rescue ratio of 1.86 and a self consistency ratio of 2.80. 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_ENCSR832OGB | float |
TF_ChIP-seq_ENCSR832OGB |
TF_ChIP-seq ENCSR832OGB [biosample_summary="Homo sapiens K562" and target="LEF1"]
|
|
[11.8, 1.73e+03] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF043YZF.bed.gz | 96.46 KB | 35c35430c78f681d42182db300ec48a9 |
| ENCFF043YZF.bed.gz.dvc | 99.0 B | 284a9b6962c01650baf00f501a0580ba |
| ENCFF043YZF.tabix.bed.gz | 65.51 KB | 7653165fbe8ac41ca25b37850c01a05e |
| ENCFF043YZF.tabix.bed.gz.dvc | 105.0 B | 08e750f3726ad327a8686498cd31a71e |
| ENCFF043YZF.tabix.bed.gz.tbi | 47.08 KB | f1d2d7f7d60ae6e55b0524706ade45c7 |
| ENCFF043YZF.tabix.bed.gz.tbi.dvc | 109.0 B | 025e2baa8c46003d78be7eeeafd72eb7 |
| genomic_resource.yaml | 5.07 KB | df5bd1956d9aeb6331dbeafdddfb532c |
| genomic_resource_original.yaml | 4.97 KB | e0e1430fae827a5bcdc7991d136c0724 |
| statistics/ |