TF_ChIP-seq_ENCSR000DMY
TF_ChIP-seq ENCSR000DMY [biosample_summary="Homo sapiens D721Med" and target="CTCF"]
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| Id: | TF_ChIP-seq/ENCSR000DMY |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR000DMY [biosamplesummary="Homo sapiens D721Med" and target="CTCF"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: optimal IDR thresholded peaks audit_internal_action: File {ENCFF845NAG|/files/ENCFF845NAG/} with status 'released' is derived from file {ENCFF419RSJ|/files/ENCFF419RSJ/} with status 'archived'. audit_internal_action: Archived analysis {ENCAN455LCR|/analyses/ENCAN455LCR/} has in progress subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/} audit_warning: Processed alignments file {ENCFF482VWN|/files/ENCFF482VWN/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 10450682 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 {ENCFF291LYW|/files/ENCFF291LYW/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 14623449 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 {ENCFF482VWN|/files/ENCFF482VWN/} processed by ChIP-seq ENCODE3 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 {ENCFF482VWN|/files/ENCFF482VWN/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 7.84. 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 {ENCFF291LYW|/files/ENCFF291LYW/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.90. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR000DMY | float |
TF_ChIP-seq_ENCSR000DMY |
TF_ChIP-seq ENCSR000DMY [biosample_summary="Homo sapiens D721Med" and target="CTCF"]
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[6.9, 418] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF845NAG.bed.gz | 681.11 KB | 5938cc121876c7b44b0bf0aef46ecb96 |
| ENCFF845NAG.bed.gz.dvc | 100.0 B | 3976c84acc26f4148ef5b5f8934f7dba |
| ENCFF845NAG.tabix.bed.gz | 505.82 KB | 8a89bb70be8421556decc2af11500720 |
| ENCFF845NAG.tabix.bed.gz.dvc | 106.0 B | 0a1ca545db9fdcd84a93f839fb42d896 |
| ENCFF845NAG.tabix.bed.gz.tbi | 281.24 KB | a8094da4d07da0a1e15184cee19f7697 |
| ENCFF845NAG.tabix.bed.gz.tbi.dvc | 110.0 B | ca958c159f183c925fa4543332358260 |
| genomic_resource.yaml | 4.49 KB | 795beb19f9a14074e49896beffcbb342 |
| genomic_resource_original.yaml | 4.39 KB | 39742980b055d1a4d725058a9f51319e |
| statistics/ |