TF_ChIP-seq_ENCSR188EMJ
TF_ChIP-seq ENCSR188EMJ [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SNAI1" and target="SNAI1"]
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| Id: | TF_ChIP-seq/ENCSR188EMJ |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR188EMJ [biosamplesummary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SNAI1" and target="SNAI1"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: genetically modified (insertion) using CRISPR targeting H. sapiens SNAI1 output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN148CEP|/analyses/ENCAN148CEP/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_internal_action: Released analysis {ENCAN148CEP|/analyses/ENCAN148CEP/} has in progress subobject document {5e4d54d4-e978-4f14-881b-5c7ec30b9c0e|/documents/5e4d54d4-e978-4f14-881b-5c7ec30b9c0e/} 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 {ENCFF309NCF|/files/ENCFF309NCF/} processed by ChIP-seq ENCODE4 v1.5.0 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 {ENCFF309NCF|/files/ENCFF309NCF/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline was generated from a library with PBC2 value of 7.75. 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 {ENCFF472SHA|/files/ENCFF472SHA/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline was generated from a library with PBC1 value of 0.84. 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 {ENCFF472SHA|/files/ENCFF472SHA/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline was generated from a library with PBC2 value of 6.36. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF179LFO|/files/ENCFF179LFO/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline have a rescue ratio of 1.08 and a self consistency ratio of 2.12. 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 {ENCFF017SIW|/files/ENCFF017SIW/} processed by ChIP-seq ENCODE4 v1.5.0 GRCh38 pipeline have a rescue ratio of 1.08 and a self consistency ratio of 2.12. 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: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR188EMJ | float |
TF_ChIP-seq_ENCSR188EMJ |
TF_ChIP-seq ENCSR188EMJ [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens SNAI1" and target="SNAI1"]
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[11.3, 547] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF179LFO.bed.gz | 203.05 KB | 42fbec2a5856d3e9785bee121fac2462 |
| ENCFF179LFO.bed.gz.dvc | 100.0 B | 85bdbcc19f09772e5d089a8962a86055 |
| ENCFF179LFO.tabix.bed.gz | 162.71 KB | b7e4100186c0479fda15afaf68cabd66 |
| ENCFF179LFO.tabix.bed.gz.dvc | 106.0 B | c8d21980c971dabba172165dd49ee3b7 |
| ENCFF179LFO.tabix.bed.gz.tbi | 66.44 KB | 6bd39b133ca986606caeadf882393023 |
| ENCFF179LFO.tabix.bed.gz.tbi.dvc | 109.0 B | 5e54d84d23c85ef54c5e6f16328379ea |
| genomic_resource.yaml | 5.49 KB | bcaa1a00a35c12054c2f86e57e28c2c2 |
| genomic_resource_original.yaml | 5.32 KB | 5d991c0b3208686bea62516eb99b550f |
| statistics/ |