| Id: | TF_ChIP-seq/ENCSR169JRW |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR169JRW [biosamplesummary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZSCAN20" and target="ZSCAN20"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: genetically modified (insertion) using CRISPR targeting H. sapiens ZSCAN20 output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN771SMA|/analyses/ENCAN771SMA/} has in progress subobject document {ee9c7e70-e4b8-49ce-8eed-1046fb8d981f|/documents/ee9c7e70-e4b8-49ce-8eed-1046fb8d981f/} audit_internal_action: Released analysis {ENCAN771SMA|/analyses/ENCAN771SMA/} 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 {ENCFF343EIY|/files/ENCFF343EIY/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC1 value of 0.85. 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 {ENCFF343EIY|/files/ENCFF343EIY/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC2 value of 6.39. 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 {ENCFF756BYL|/files/ENCFF756BYL/} processed by ChIP-seq ENCODE4 v1.4.0 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 {ENCFF756BYL|/files/ENCFF756BYL/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC2 value of 7.24. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF505AEY|/files/ENCFF505AEY/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline have a rescue ratio of 1.14 and a self consistency ratio of 2.65. 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 {ENCFF159KVX|/files/ENCFF159KVX/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline have a rescue ratio of 1.14 and a self consistency ratio of 2.65. 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_ENCSR169JRW | float |
TF_ChIP-seq_ENCSR169JRW |
TF_ChIP-seq ENCSR169JRW [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZSCAN20" and target="ZSCAN20"]
|
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[8.23, 459] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF505AEY.bed.gz | 191.83 KB | ff9f1763be05f9d29279afeba71432bd |
| ENCFF505AEY.bed.gz.dvc | 100.0 B | d73ba0051d4119cd8b4cbdcfbd43f733 |
| ENCFF505AEY.tabix.bed.gz | 140.32 KB | f5764a07c54e6544c732d6671a7a82b8 |
| ENCFF505AEY.tabix.bed.gz.dvc | 106.0 B | b823ffd52e9c64ac6ebe6383326c6a8c |
| ENCFF505AEY.tabix.bed.gz.tbi | 70.19 KB | 6a84aeaf3b611e70f16de398f7f28363 |
| ENCFF505AEY.tabix.bed.gz.tbi.dvc | 109.0 B | aea96253fce7aaca486a0219ccb7382f |
| genomic_resource.yaml | 5.5 KB | 6b6ca80e5949fab0dc12d67860b9c15b |
| genomic_resource_original.yaml | 5.33 KB | fdbf0c062eaf02d84dd6c8fa6febcee0 |
| statistics/ |