type: position_score
table:
  filename: ENCFF699WXF.tabix.bed.gz
  header_mode: none
  zero_based: true
  format: tabix
  chrom:
    column_index: 0
  pos_begin:
    column_index: 1
  pos_end:
    column_index: 2
scores:
- id: TF_ChIP-seq_ENCSR163RYW
  column_index: 3
  type: float
  desc: 'TF_ChIP-seq ENCSR163RYW [biosample_summary="Homo sapiens HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF189" and target="ZNF189"]'
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'TF_ChIP-seq ENCSR163RYW [biosample_summary="Homo sapiens HEK293 genetically modified (insertion) using site-specific recombination targeting H. sapiens ZNF189" and target="ZNF189"]'
  description: '**status**: released


    **biological\_replicates**: Rep 1, Rep 2


    **summary**: genetically modified (insertion) using site-specific recombination
    targeting H. sapiens ZNF189


    **output\_type**: optimal IDR thresholded peaks


    **audit\_internal\_action**: Archived analysis {ENCAN599AWK|/analyses/ENCAN599AWK/}
    has in progress subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/}


    **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 {ENCFF014SGL|/files/ENCFF014SGL/} processed by ChIP-seq ENCODE3 hg19 pipeline
    was generated from a library with PBC1 value of 0.84.


    **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 {ENCFF014SGL|/files/ENCFF014SGL/}
    processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with
    PBC2 value of 6.09.


    **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 {ENCFF332OVN|/files/ENCFF332OVN/} processed by ChIP-seq ENCODE3 hg19 pipeline
    was generated from a library with PBC1 value of 0.82.


    **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 {ENCFF332OVN|/files/ENCFF332OVN/}
    processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with
    PBC2 value of 5.54.'
  labels:
    reference_genome: hg38/genomes/GRCh38-hg38
    accession: ENCSR163RYW
    status: released
    assay_term_name: ChIP-seq
    simple_biosample_summary: genetically modified (insertion) using site-specific
      recombination targeting H. sapiens ZNF189
    biosample_summary: Homo sapiens HEK293 genetically modified (insertion) using
      site-specific recombination targeting H. sapiens ZNF189
    replication_type: isogenic
    biosample_ontology: /biosample-types/cell_line_EFO_0001182/
    perturbed: false
    doi: 10.17989/ENCSR163RYW
    date_created: '2016-12-14T21:11:45.870691+00:00'
    date_released: '2017-11-28'
    submitter_comment: This experiment uses two slightly different protocols for each
      replicate. Replicate 1 uses 'BravoTruSeq protocol' whereas replicate 2 uses
      'TruSeq' protocol.
    target: ZNF189
