TF_ChIP-seq_ENCSR000BOT
TF_ChIP-seq ENCSR000BOT [biosample_summary="Homo sapiens HepG2" and target="REST"]
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| Id: | TF_ChIP-seq/ENCSR000BOT |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR000BOT [biosamplesummary="Homo sapiens HepG2" and target="REST"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN099KCF|/analyses/ENCAN099KCF/} has in progress subobject document {fc7197f2-547a-4e91-88fc-d91634f8e82c|/documents/fc7197f2-547a-4e91-88fc-d91634f8e82c/} audit_internal_action: Released analysis {ENCAN099KCF|/analyses/ENCAN099KCF/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-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 {ENCFF871IQR|/files/ENCFF871IQR/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.86. 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 {ENCFF871IQR|/files/ENCFF871IQR/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 7.00. 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 {ENCFF111DXX|/files/ENCFF111DXX/} processed by ChIP-seq ENCODE4 v1.6.1 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 {ENCFF111DXX|/files/ENCFF111DXX/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 7.64. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF271FEM|/files/ENCFF271FEM/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline have a rescue ratio of 1.43 and a self consistency ratio of 2.33. 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_ENCSR000BOT | float |
TF_ChIP-seq_ENCSR000BOT |
TF_ChIP-seq ENCSR000BOT [biosample_summary="Homo sapiens HepG2" and target="REST"]
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[5.42, 588] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF271FEM.bed.gz | 283.96 KB | e15a8c0d0004642daa8d4a818e760896 |
| ENCFF271FEM.bed.gz.dvc | 100.0 B | e2422df01a4578b631dd2e0e3d5010af |
| ENCFF271FEM.tabix.bed.gz | 195.47 KB | fed79afd7d176ab145e2b26bf7e12aeb |
| ENCFF271FEM.tabix.bed.gz.dvc | 106.0 B | da1296375c15ce724bcaf9ea8ed7708a |
| ENCFF271FEM.tabix.bed.gz.tbi | 114.21 KB | c55cf88a186b9dc1b6ed805bfd9a9246 |
| ENCFF271FEM.tabix.bed.gz.tbi.dvc | 110.0 B | 9fcef0b299e4975da94ffb9ba56b2726 |
| genomic_resource.yaml | 4.73 KB | 949e475c1d42e03018f35fb233dfcce2 |
| genomic_resource_original.yaml | 4.63 KB | 4948168c05a3a37182ad1b6dd9548033 |
| statistics/ |