TF_ChIP-seq_ENCSR722TRY
TF_ChIP-seq ENCSR722TRY [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PAWR" and target="PAWR"]
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| Id: | TF_ChIP-seq/ENCSR722TRY |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR722TRY [biosamplesummary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PAWR" and target="PAWR"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: genetically modified (insertion) using CRISPR targeting H. sapiens PAWR output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN933RNC|/analyses/ENCAN933RNC/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_internal_action: Released analysis {ENCAN933RNC|/analyses/ENCAN933RNC/} has in progress subobject document {74431eca-7e24-41ad-bfb9-f2a8f5c8ae53|/documents/74431eca-7e24-41ad-bfb9-f2a8f5c8ae53/} 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 {ENCFF971ZPY|/files/ENCFF971ZPY/} 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 {ENCFF971ZPY|/files/ENCFF971ZPY/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC2 value of 7.32. 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 {ENCFF334ISJ|/files/ENCFF334ISJ/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC1 value of 0.80. 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 {ENCFF334ISJ|/files/ENCFF334ISJ/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline was generated from a library with PBC2 value of 5.15. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF165IYE|/files/ENCFF165IYE/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline have a rescue ratio of 1.81 and a self consistency ratio of 3.59. 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 {ENCFF986SDH|/files/ENCFF986SDH/} processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline have a rescue ratio of 1.81 and a self consistency ratio of 3.59. 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_ENCSR722TRY | float |
TF_ChIP-seq_ENCSR722TRY |
TF_ChIP-seq ENCSR722TRY [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens PAWR" and target="PAWR"]
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[9.58, 293] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF165IYE.bed.gz | 75.04 KB | 966a872fe975ab31913c69ab3f6dc9c7 |
| ENCFF165IYE.bed.gz.dvc | 99.0 B | ba94ddabd3b732d50354e09d90c9070a |
| ENCFF165IYE.tabix.bed.gz | 56.31 KB | 19973a88c092fcfdba7bac18971a3190 |
| ENCFF165IYE.tabix.bed.gz.dvc | 105.0 B | f5b02d622496ffc3948e95016c105fb0 |
| ENCFF165IYE.tabix.bed.gz.tbi | 32.4 KB | 72f081a60fa9793e5533d4e13a068f6f |
| ENCFF165IYE.tabix.bed.gz.tbi.dvc | 109.0 B | 036e9b78223b75e0a6892119909dbc92 |
| genomic_resource.yaml | 5.48 KB | 468a2c8a69bd0b4907d967fb4fcc4fba |
| genomic_resource_original.yaml | 5.32 KB | bfc941dbfd52102b4a789f1edcb90951 |
| statistics/ |