TF_ChIP-seq_ENCSR123GPC
TF_ChIP-seq ENCSR123GPC [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens THAP9" and target="THAP9"]
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| Id: | TF_ChIP-seq/ENCSR123GPC |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR123GPC [biosamplesummary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens THAP9" and target="THAP9"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: genetically modified (insertion) using CRISPR targeting H. sapiens THAP9 output_type: IDR thresholded peaks audit_internal_action: Released file {ENCFF858SAF|/files/ENCFF858SAF/} has deleted subobject file {ENCFF586OVX|/files/ENCFF586OVX/} audit_internal_action: Released analysis {ENCAN398OYO|/analyses/ENCAN398OYO/} 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 {ENCFF858PRY|/files/ENCFF858PRY/} processed by ChIP-seq ENCODE4 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 {ENCFF858PRY|/files/ENCFF858PRY/} processed by ChIP-seq ENCODE4 GRCh38 pipeline was generated from a library with PBC2 value of 6.19. 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 {ENCFF514XNY|/files/ENCFF514XNY/} processed by ChIP-seq ENCODE4 GRCh38 pipeline was generated from a library with PBC1 value of 0.89. 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 {ENCFF514XNY|/files/ENCFF514XNY/} processed by ChIP-seq ENCODE4 GRCh38 pipeline was generated from a library with PBC2 value of 9.03. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF858SAF|/files/ENCFF858SAF/} processed by ChIP-seq ENCODE4 GRCh38 pipeline have a rescue ratio of 1.39 and a self consistency ratio of 4.68. 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 {ENCFF687WSR|/files/ENCFF687WSR/} processed by ChIP-seq ENCODE4 GRCh38 pipeline have a rescue ratio of 1.39 and a self consistency ratio of 4.68. 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_ENCSR123GPC | float |
TF_ChIP-seq_ENCSR123GPC |
TF_ChIP-seq ENCSR123GPC [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens THAP9" and target="THAP9"]
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[12.2, 1.51e+03] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF858SAF.bed.gz | 358.72 KB | 9a87671cfbc3e50f121918580e2966b2 |
| ENCFF858SAF.bed.gz.dvc | 100.0 B | 3835fe08fabbe404ba2d14a4e8b0f271 |
| ENCFF858SAF.tabix.bed.gz | 300.54 KB | ece08e03a7d5c703b151e134588e8c99 |
| ENCFF858SAF.tabix.bed.gz.dvc | 106.0 B | 9f41cdc5d8c57c4b3965a79f0788d5b9 |
| ENCFF858SAF.tabix.bed.gz.tbi | 109.18 KB | 6e5eaddc8120144ee7bec73adcd53618 |
| ENCFF858SAF.tabix.bed.gz.tbi.dvc | 110.0 B | 10c1984c896906de74870f226775a387 |
| genomic_resource.yaml | 5.38 KB | 72ab8f180f1c3023488fca3ad1e63553 |
| genomic_resource_original.yaml | 5.21 KB | ce3a74e6d9c6da44203585a3926194b8 |
| statistics/ |