TF_ChIP-seq_ENCSR000BRN
TF_ChIP-seq ENCSR000BRN [biosample_summary="Homo sapiens GM12878" and target="NFIC"]
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| Id: | TF_ChIP-seq/ENCSR000BRN |
| Type: | position_score |
| Version: | 0 |
| Summary: |
TFChIP-seq ENCSR000BRN [biosamplesummary="Homo sapiens GM12878" and target="NFIC"] |
| Description: |
status: released biological_replicates: Rep 1, Rep 2 summary: output_type: optimal IDR thresholded peaks audit_internal_action: Archived analysis {ENCAN777YDC|/analyses/ENCAN777YDC/} has in progress subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/} audit_warning: Processed alignments file {ENCFF617HLC|/files/ENCFF617HLC/} processed by ChIP-seq ENCODE3 hg19 pipeline has 16766618 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting NFIC-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 {ENCFF930KIJ|/files/ENCFF930KIJ/} processed by ChIP-seq ENCODE3 hg19 pipeline has 18543238 usable fragments. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting NFIC-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 {ENCFF617HLC|/files/ENCFF617HLC/} processed by ChIP-seq ENCODE3 hg19 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 {ENCFF617HLC|/files/ENCFF617HLC/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 5.54. 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 {ENCFF930KIJ|/files/ENCFF930KIJ/} processed by ChIP-seq ENCODE3 hg19 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 {ENCFF930KIJ|/files/ENCFF930KIJ/} processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with PBC2 value of 6.94. |
| Labels: |
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| ID | Type | Default annotation | Description | Histogram | Range |
|---|---|---|---|---|---|
| TF_ChIP-seq_ENCSR000BRN | float |
TF_ChIP-seq_ENCSR000BRN |
TF_ChIP-seq ENCSR000BRN [biosample_summary="Homo sapiens GM12878" and target="NFIC"]
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[6.62, 452] |
| Filename | Size | md5 |
|---|---|---|
| ENCFF628QJU.bed.gz | 625.79 KB | dc9ce027a41e9f4547f9aa222c71c62c |
| ENCFF628QJU.bed.gz.dvc | 100.0 B | a7f17ef8c67f4c10d6ff6a8ddb9b2ee3 |
| ENCFF628QJU.tabix.bed.gz | 510.98 KB | 9a3a00d3e882cb3fa4d8ae6392d27c72 |
| ENCFF628QJU.tabix.bed.gz.dvc | 106.0 B | 1beb74c940debcc0cc7c322f13c288b9 |
| ENCFF628QJU.tabix.bed.gz.tbi | 176.95 KB | e2aaeee36b4b91d9073250da98d22717 |
| ENCFF628QJU.tabix.bed.gz.tbi.dvc | 110.0 B | aaab412465fe66aa9148eaf02fd6947e |
| genomic_resource.yaml | 4.93 KB | 05944c02ce114bfb1119be9059fb22c3 |
| genomic_resource_original.yaml | 4.83 KB | 1e3c0f8ce718acfb77145a97588477d4 |
| statistics/ |