type: position_score
table:
  filename: ENCFF837QHJ.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_ENCSR445QRF
  column_index: 3
  type: float
  desc: signal
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'ChIP-seq ENCSR445QRF [TISSUE: Homo sapiens liver tissue female child (4
    years), TARGET: HNF4A]'
  description: '**status**: released


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


    **summary**: female child (4 years)


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


    **audit\_internal\_action**: Archived analysis {ENCAN914YDV|/analyses/ENCAN914YDV/}
    has in progress subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/}


    **audit\_internal\_action**: File {ENCFF837QHJ|/files/ENCFF837QHJ/} with status
    ''released'' is derived from file {ENCFF419RSJ|/files/ENCFF419RSJ/} with status
    ''archived''.


    **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 {ENCFF058OZQ|/files/ENCFF058OZQ/} 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 {ENCFF058OZQ|/files/ENCFF058OZQ/}
    processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with
    PBC2 value of 8.60.


    **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 {ENCFF658AIS|/files/ENCFF658AIS/} 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 {ENCFF658AIS|/files/ENCFF658AIS/}
    processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with
    PBC2 value of 8.21.'
  labels:
    reference_genome: hg38/genomes/GRCh38-hg38
    accession: ENCSR445QRF
    status: released
    assay_term_name: ChIP-seq
    simple_biosample_summary: female child (4 years)
    biosample_summary: Homo sapiens liver tissue female child (4 years)
    replication_type: isogenic
    biosample_ontology: /biosample-types/tissue_UBERON_0002107/
    perturbed: false
    doi: 10.17989/ENCSR445QRF
    date_created: '2015-09-29T16:19:09.764305+00:00'
    date_released: '2016-06-30'
    submitter_comment: 'This experiment is being used in the ENCODE-DREAM Transcription
      Factor Binding Site Prediction Challenge (https://www.synapse.org/#!Synapse:syn6131484/wiki/400026).
      The files will be unavailable until after the challenge completes on 09-30-16.
      UPDATE: There will be a second round to the challenge that is expected to end
      on 01-11-2017'
    target: HNF4A