TF_ChIP-seq_ENCSR000DKR
TF_ChIP-seq ENCSR000DKR [biosample_summary="Homo sapiens GM10266" and target="CTCF"]
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| Id: | TF_ChIP-seq/ENCSR000DKR |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR000DKR [biosamplesummary="Homo sapiens GM10266" and target="CTCF"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: optimal IDR thresholded peaks audit_internal_action: Archived analysis {ENCAN229CDA|/analyses/ENCAN229CDA/} has in progress subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/} audit_warning: Processed alignments file {ENCFF892JNF|/files/ENCFF892JNF/} processed by ChIP-seq ENCODE3 hg19 pipeline has 11265887 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting CTCF-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: Processed alignments file {ENCFF719PSV|/files/ENCFF719PSV/} processed by ChIP-seq ENCODE3 hg19 pipeline has 18542733 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting CTCF-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 {ENCFF892JNF|/files/ENCFF892JNF/} processed by ChIP-seq ENCODE3 hg19 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 {ENCFF892JNF|/files/ENCFF892JNF/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 7.33. 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 {ENCFF719PSV|/files/ENCFF719PSV/} processed by ChIP-seq ENCODE3 hg19 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 {ENCFF719PSV|/files/ENCFF719PSV/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 8.50. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR000DKR | float |
TF_ChIP-seq_ENCSR000DKR |
TF_ChIP-seq ENCSR000DKR [biosample_summary="Homo sapiens GM10266" and target="CTCF"]
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[5.78, 315] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF855HSK.bed.gz | 508.65 KB | 88e4bb9295bf0a07c811034ba0e4ed00 |
| ENCFF855HSK.bed.gz.dvc | 100.0 B | 636daf28830d31aad31b77b3ba481b01 |
| ENCFF855HSK.tabix.bed.gz | 384.7 KB | 86829c20b860d7d71abac4987df2a6c4 |
| ENCFF855HSK.tabix.bed.gz.dvc | 106.0 B | cade9b0197d0f7e620bf178f11bdd505 |
| ENCFF855HSK.tabix.bed.gz.tbi | 220.75 KB | c36306a33450d169c6fa04804d5ee7af |
| ENCFF855HSK.tabix.bed.gz.tbi.dvc | 110.0 B | cb270f565b4ac9a91e080ffaaefdf597 |
| genomic_resource.yaml | 4.93 KB | 75322a6e2f3e2bfe005e23123eadcbe0 |
| genomic_resource_original.yaml | 4.83 KB | b84c3ed7dfb5f5a116d84cc638997922 |
| statistics/ |