TF_ChIP-seq_ENCSR009LIA
TF_ChIP-seq ENCSR009LIA [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF10" and target="ZNF10"]
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| Id: | TF_ChIP-seq/ENCSR009LIA |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR009LIA [biosamplesummary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF10" and target="ZNF10"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: genetically modified (insertion) using CRISPR targeting H. sapiens ZNF10 output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN851GFI|/analyses/ENCAN851GFI/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_internal_action: Released analysis {ENCAN851GFI|/analyses/ENCAN851GFI/} has replaced subobject file {0b40f16b-463b-43ad-862e-eb47ecff0ed0|/files/0b40f16b-463b-43ad-862e-eb47ecff0ed0/} audit_internal_action: Released analysis {ENCAN851GFI|/analyses/ENCAN851GFI/} has in progress subobject document {77157045-6368-44de-8502-99fcfad2ffaa|/documents/77157045-6368-44de-8502-99fcfad2ffaa/} audit_internal_action: Released analysis {ENCAN851GFI|/analyses/ENCAN851GFI/} has replaced subobject file {10ff6ecd-312c-4f6d-ac16-1377e4bb1379|/files/10ff6ecd-312c-4f6d-ac16-1377e4bb1379/} audit_warning: Processed alignments file {ENCFF351BSE|/files/ENCFF351BSE/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline has 17512985 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting ZNF10-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 {ENCFF351BSE|/files/ENCFF351BSE/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC1 value of 0.90. 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 {ENCFF351BSE|/files/ENCFF351BSE/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC2 value of 9.86. 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 {ENCFF449VBS|/files/ENCFF449VBS/} processed by ChIP-seq ENCODE4 v1.4.0 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 {ENCFF449VBS|/files/ENCFF449VBS/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC2 value of 9.50. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF321MKV|/files/ENCFF321MKV/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline have a rescue ratio of 1.27 and a self consistency ratio of 3.97. 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 {ENCFF810WWS|/files/ENCFF810WWS/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline have a rescue ratio of 1.27 and a self consistency ratio of 3.97. 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_ENCSR009LIA | float |
TF_ChIP-seq_ENCSR009LIA |
TF_ChIP-seq ENCSR009LIA [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens ZNF10" and target="ZNF10"]
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[7.21, 225] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF321MKV.bed.gz | 16.01 KB | c97233dd51b34a6c9170b5acb30f381c |
| ENCFF321MKV.bed.gz.dvc | 99.0 B | 20a004f8bc9fd1e56dca07cb44e56bd9 |
| ENCFF321MKV.tabix.bed.gz | 11.1 KB | 7795de804c8805b566e9652904650659 |
| ENCFF321MKV.tabix.bed.gz.dvc | 105.0 B | e48fa487d5c94373e188429de80e6acb |
| ENCFF321MKV.tabix.bed.gz.tbi | 11.36 KB | d5331d19e04d66ef610e1116712e600e |
| ENCFF321MKV.tabix.bed.gz.tbi.dvc | 109.0 B | 3eec044e3317603035aa3da5d07e8a1d |
| genomic_resource.yaml | 6.37 KB | c2a9837ee59b3eb78624b20b68cc86b0 |
| genomic_resource_original.yaml | 6.21 KB | 5967fb6adae8e8af1a663ce2da9639fa |
| statistics/ |