TF_ChIP-seq_ENCSR725QZQ
TF_ChIP-seq ENCSR725QZQ [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TIGD3" and target="TIGD3"]
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| Id: | TF_ChIP-seq/ENCSR725QZQ |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR725QZQ [biosamplesummary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TIGD3" and target="TIGD3"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: genetically modified (insertion) using CRISPR targeting H. sapiens TIGD3 output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN787MMB|/analyses/ENCAN787MMB/} has in progress subobject document {18fb6faf-401f-46ad-9f80-52eefd94540d|/documents/18fb6faf-401f-46ad-9f80-52eefd94540d/} audit_internal_action: Released analysis {ENCAN787MMB|/analyses/ENCAN787MMB/} 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 {ENCFF189MQW|/files/ENCFF189MQW/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 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 {ENCFF189MQW|/files/ENCFF189MQW/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 8.58. 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 {ENCFF539OTS|/files/ENCFF539OTS/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 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 {ENCFF539OTS|/files/ENCFF539OTS/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 8.46. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF003AMQ|/files/ENCFF003AMQ/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline have a rescue ratio of 1.31 and a self consistency ratio of 3.91. 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 {ENCFF491KVL|/files/ENCFF491KVL/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline have a rescue ratio of 1.31 and a self consistency ratio of 3.91. 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_ENCSR725QZQ | float |
TF_ChIP-seq_ENCSR725QZQ |
TF_ChIP-seq ENCSR725QZQ [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens TIGD3" and target="TIGD3"]
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[11.8, 455] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF003AMQ.bed.gz | 104.26 KB | ab41c8ac5b7b453e715fea79b533793a |
| ENCFF003AMQ.bed.gz.dvc | 100.0 B | a2fc92c47ff80370d61e31f9da1c933b |
| ENCFF003AMQ.tabix.bed.gz | 80.92 KB | 1ba9e117c05576cb6f029e0257d1de99 |
| ENCFF003AMQ.tabix.bed.gz.dvc | 105.0 B | 8565af33183ed2f25e9e1b93e82d3be0 |
| ENCFF003AMQ.tabix.bed.gz.tbi | 43.47 KB | 9398048b146c958908aef0875f4c4629 |
| ENCFF003AMQ.tabix.bed.gz.tbi.dvc | 109.0 B | 4a907401c153ef8149287e1c5d44d22c |
| genomic_resource.yaml | 5.49 KB | a92ffbeab1ee2fb4b61e89f592d45028 |
| genomic_resource_original.yaml | 5.32 KB | 9471b417f302db028327f4072d28edc4 |
| statistics/ |