TF_ChIP-seq_ENCSR759KXQ
TF_ChIP-seq ENCSR759KXQ [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF337" and target="ZNF337"]
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| Id: | TF_ChIP-seq/ENCSR759KXQ |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR759KXQ [biosamplesummary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF337" and target="ZNF337"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: genetically modified (insertion) using CRISPR targeting H. sapiens ZNF337 output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN906NNA|/analyses/ENCAN906NNA/} has in progress subobject document {a15d6504-786a-472c-be3b-53291dd735cb|/documents/a15d6504-786a-472c-be3b-53291dd735cb/} audit_internal_action: Released analysis {ENCAN906NNA|/analyses/ENCAN906NNA/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_warning: Processed alignments file {ENCFF832EEU|/files/ENCFF832EEU/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline has 14300448 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting ZNF337-human and investigated as a transcription factor is 10 million usable fragments. The recommended value is > 20 million, but > 10 million is acceptable. (See {ENCODE ChIP-seq data standards|/data-standards/chip-seq/} ) 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 {ENCFF261DAP|/files/ENCFF261DAP/} processed by ChIP-seq ENCODE4 v1.5.1 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 {ENCFF261DAP|/files/ENCFF261DAP/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 6.82. 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 {ENCFF832EEU|/files/ENCFF832EEU/} processed by ChIP-seq ENCODE4 v1.5.1 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 {ENCFF832EEU|/files/ENCFF832EEU/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with PBC2 value of 6.29. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF272IPH|/files/ENCFF272IPH/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline have a rescue ratio of 1.41 and a self consistency ratio of 4.93. 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 {ENCFF530ZHE|/files/ENCFF530ZHE/} processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline have a rescue ratio of 1.41 and a self consistency ratio of 4.93. 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_ENCSR759KXQ | float |
TF_ChIP-seq_ENCSR759KXQ |
TF_ChIP-seq ENCSR759KXQ [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF337" and target="ZNF337"]
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[9.33, 378] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF272IPH.bed.gz | 178.68 KB | 079bc67da1face0c2ea964a058b1ce1f |
| ENCFF272IPH.bed.gz.dvc | 100.0 B | e3212110d2205e5634426a779a917015 |
| ENCFF272IPH.tabix.bed.gz | 139.23 KB | 3986ed6994fd93293ca3500d2291a68c |
| ENCFF272IPH.tabix.bed.gz.dvc | 106.0 B | 31fa2cb591deafae7d044af7084879d9 |
| ENCFF272IPH.tabix.bed.gz.tbi | 63.19 KB | 01b9e295f1ae8d00a88c159fade52925 |
| ENCFF272IPH.tabix.bed.gz.tbi.dvc | 109.0 B | 1aeb2d801f449ea369b1349e11a9fed9 |
| genomic_resource.yaml | 5.98 KB | e275d74aadb4c1c17d94076d3d56d477 |
| genomic_resource_original.yaml | 5.81 KB | b252d3b812845212931903c5f2e7446d |
| statistics/ |