TF_ChIP-seq_ENCSR469WAO
TF_ChIP-seq ENCSR469WAO [biosample_summary="Homo sapiens A549" and target="CBX2"]
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| Id: | TF_ChIP-seq/ENCSR469WAO |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR469WAO [biosamplesummary="Homo sapiens A549" and target="CBX2"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: IDR thresholded peaks audit_internal_action: Released analysis {ENCAN718XRO|/analyses/ENCAN718XRO/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_internal_action: Released analysis {ENCAN718XRO|/analyses/ENCAN718XRO/} has in progress subobject document {b9e1bdb6-59d1-410c-9abc-6a7e09c98cb8|/documents/b9e1bdb6-59d1-410c-9abc-6a7e09c98cb8/} audit_warning: Processed alignments file {ENCFF586PAX|/files/ENCFF586PAX/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 19595528 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting CBX2-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 {ENCFF586PAX|/files/ENCFF586PAX/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.87. 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 {ENCFF586PAX|/files/ENCFF586PAX/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 7.55. 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 {ENCFF668UOC|/files/ENCFF668UOC/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC1 value of 0.81. 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 {ENCFF668UOC|/files/ENCFF668UOC/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 5.03. audit_warning: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF341HVV|/files/ENCFF341HVV/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline have a rescue ratio of 1.46 and a self consistency ratio of 2.46. 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_ENCSR469WAO | float |
TF_ChIP-seq_ENCSR469WAO |
TF_ChIP-seq ENCSR469WAO [biosample_summary="Homo sapiens A549" and target="CBX2"]
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[6.06, 272] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF341HVV.bed.gz | 1.88 KB | 9bc1d29cfb8da48b91f1664d035f4353 |
| ENCFF341HVV.bed.gz.dvc | 98.0 B | 6806901d7d9a086593d64c652040129b |
| ENCFF341HVV.tabix.bed.gz | 1.41 KB | 60e1c55f3eeb2b4789fd0b485ed79981 |
| ENCFF341HVV.tabix.bed.gz.dvc | 104.0 B | 17200e0639a29bb7ae342bac205aff9a |
| ENCFF341HVV.tabix.bed.gz.tbi | 3.74 KB | ab75fdbdcc3b3934196388f579032896 |
| ENCFF341HVV.tabix.bed.gz.tbi.dvc | 108.0 B | a0ac8b1d5111bfcc72a30baa93cc99e7 |
| genomic_resource.yaml | 5.23 KB | 3dbe686a0045aec2db0c305c778c4f12 |
| genomic_resource_original.yaml | 5.13 KB | afe20e7a012db810d0f1ab5ee2bb4fe0 |
| statistics/ |