type: position_score
table:
  filename: ENCFF199EHQ.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_ENCSR000EUV
  column_index: 3
  type: float
  desc: 'TF_ChIP-seq ENCSR000EUV [biosample_summary="Homo sapiens HCT116" and target="TCF7L2"]'
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'TF_ChIP-seq ENCSR000EUV [biosample_summary="Homo sapiens HCT116" and target="TCF7L2"]'
  description: "**status**: released\n\n**biological\\_replicates**: Rep 1, Rep 2\n\
    \n**summary**: \n\n**output\\_type**: optimal IDR thresholded peaks\n\n**audit\\\
    _error**: Processed alignments file {ENCFF690REU|/files/ENCFF690REU/} processed\
    \ by ChIP-seq ENCODE3 GRCh38 pipeline has 4624844 usable fragments. The minimum\
    \ ENCODE standard for each replicate in a ChIP-seq experiment targeting TCF7L2-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\\_internal\\\
    _action**: Archived analysis {ENCAN387GPM|/analyses/ENCAN387GPM/} has in progress\
    \ subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/}\n\
    \n**audit\\_internal\\_action**: File {ENCFF199EHQ|/files/ENCFF199EHQ/} with status\
    \ 'released' is derived from file {ENCFF419RSJ|/files/ENCFF419RSJ/} with status\
    \ 'archived'.\n\n**audit\\_not\\_compliant**: Processed alignments file {ENCFF470XCI|/files/ENCFF470XCI/}\
    \ processed by ChIP-seq ENCODE3 GRCh38 pipeline has 8118419 usable fragments.\
    \ The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting\
    \ TCF7L2-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**: Replicate concordance in ChIP-seq experiments is measured by calculating\
    \ IDR values (Irreproducible Discovery Rate). ENCODE processed IDR thresholded\
    \ peaks files {ENCFF736EVD|/files/ENCFF736EVD/}, {ENCFF199EHQ|/files/ENCFF199EHQ/}\
    \ processed by ChIP-seq ENCODE3 GRCh38 pipeline have a rescue ratio of 1.33 and\
    \ a self consistency ratio of 2.85. According to ENCODE standards, having both\
    \ rescue ratio and self consistency ratio values < 2 is recommended, but having\
    \ only one of the ratio values < 2 is acceptable.\n\n**audit\\_warning**: Replicate\
    \ concordance in ChIP-seq experiments is measured by calculating IDR values (Irreproducible\
    \ Discovery Rate). ENCODE processed IDR thresholded peaks files {ENCFF333WEH|/files/ENCFF333WEH/},\
    \ {ENCFF274IDK|/files/ENCFF274IDK/} processed by ChIP-seq ENCODE3 GRCh38 pipeline\
    \ have a rescue ratio of 1.33 and a self consistency ratio of 2.85. According\
    \ to ENCODE standards, having both rescue ratio and self consistency ratio values\
    \ < 2 is recommended, but having only one of the ratio values < 2 is acceptable."
  labels:
    reference_genome: hg38/genomes/GRCh38-hg38
    accession: ENCSR000EUV
    status: released
    assay_term_name: ChIP-seq
    simple_biosample_summary: ''
    biosample_summary: Homo sapiens HCT116
    replication_type: isogenic
    biosample_ontology: /biosample-types/cell_line_EFO_0002824/
    perturbed: false
    doi: 10.17989/ENCSR000EUV
    date_created: '2013-12-19T23:51:10.406694+00:00'
    date_released: '2011-10-29'
    submitter_comment: The data quality is too poor for peak analysis for hg19. Not
      enough peaks can be called. The GRCh38 data should also be used with caution.
    target: TCF7L2