type: position_score
table:
  filename: ENCFF232FXZ.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_ENCSR359LOD
  column_index: 3
  type: float
  desc: 'TF_ChIP-seq ENCSR359LOD [biosample_summary="Homo sapiens PC-3" and target="CTCF"]'
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'TF_ChIP-seq ENCSR359LOD [biosample_summary="Homo sapiens PC-3" and target="CTCF"]'
  description: "**status**: archived\n\n**biological\\_replicates**: Rep 1, Rep 2\n\
    \n**summary**: \n\n**output\\_type**: optimal IDR thresholded peaks\n\n**audit\\\
    _internal\\_action**: Archived analysis {ENCAN144PDL|/analyses/ENCAN144PDL/} has\
    \ in progress subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/}\n\
    \n**audit\\_warning**: Processed alignments file {ENCFF387ZDQ|/files/ENCFF387ZDQ/}\
    \ processed by ChIP-seq ENCODE3 GRCh38 pipeline has 15026377 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/} )\n\n**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\
    \ {ENCFF572XLQ|/files/ENCFF572XLQ/} processed by ChIP-seq ENCODE3 GRCh38 pipeline\
    \ was generated from a library with PBC1 value of 0.89."
  labels:
    reference_genome: hg38/genomes/GRCh38-hg38
    accession: ENCSR359LOD
    status: released
    assay_term_name: ChIP-seq
    simple_biosample_summary: ''
    biosample_summary: Homo sapiens PC-3
    replication_type: isogenic
    biosample_ontology: /biosample-types/cell_line_EFO_0002074/
    perturbed: false
    doi: 10.17989/ENCSR359LOD
    date_created: '2014-02-20T05:14:06.176396+00:00'
    date_released: '2017-10-19'
    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: CTCF
