TF_ChIP-seq_ENCSR000EGY
TF_ChIP-seq ENCSR000EGY [biosample_summary="Homo sapiens K562" and target="EP300"]
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| Id: | TF_ChIP-seq/ENCSR000EGY |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR000EGY [biosamplesummary="Homo sapiens K562" and target="EP300"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: IDR thresholded peaks audit_error: Processed alignments file {ENCFF808GKZ|/files/ENCFF808GKZ/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 3332484 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting EP300-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_internal_action: Released analysis {ENCAN593ZZF|/analyses/ENCAN593ZZF/} has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/} audit_internal_action: Released analysis {ENCAN593ZZF|/analyses/ENCAN593ZZF/} has in progress subobject document {da6bdf7e-0d89-445a-a06d-11deae3a179f|/documents/da6bdf7e-0d89-445a-a06d-11deae3a179f/} audit_not_compliant: Replicate concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF821MKR|/files/ENCFF821MKR/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline have a rescue ratio of 2.30 and a self consistency ratio of 27.39. 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: Processed alignments file {ENCFF396RFE|/files/ENCFF396RFE/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 19115902 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting EP300-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 {ENCFF396RFE|/files/ENCFF396RFE/} 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 {ENCFF396RFE|/files/ENCFF396RFE/} processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline was generated from a library with PBC2 value of 7.44. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR000EGY | float |
TF_ChIP-seq_ENCSR000EGY |
TF_ChIP-seq ENCSR000EGY [biosample_summary="Homo sapiens K562" and target="EP300"]
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[3.87, 195] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF821MKR.bed.gz | 54.75 KB | 2348231ccbb4c778aa62ab3c82bd9586 |
| ENCFF821MKR.bed.gz.dvc | 99.0 B | e4ffbbbe402ed7115d3fda7ce8ba2971 |
| ENCFF821MKR.tabix.bed.gz | 37.61 KB | d0fe627dc47401a71df97eacdf584293 |
| ENCFF821MKR.tabix.bed.gz.dvc | 105.0 B | ffe9b9876474283c0b6f6846185ca26c |
| ENCFF821MKR.tabix.bed.gz.tbi | 32.43 KB | 02c93ca1b9878d0f9182ad03141c244e |
| ENCFF821MKR.tabix.bed.gz.tbi.dvc | 109.0 B | e0661a96628233d83f92a928a5a7ae9c |
| genomic_resource.yaml | 4.42 KB | e4c963f278792b037a34ce547275f02d |
| genomic_resource_original.yaml | 4.33 KB | 8d12ba10192ea6b25869b63cca47ca36 |
| statistics/ |