type: position_score
table:
  filename: ENCFF196JQW.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_ENCSR000DZU
  column_index: 3
  type: float
  desc: 'TF_ChIP-seq ENCSR000DZU [biosample_summary="Homo sapiens GM12878" and target="USF2"]'
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'TF_ChIP-seq ENCSR000DZU [biosample_summary="Homo sapiens GM12878" and target="USF2"]'
  description: "**status**: released\n\n**biological\\_replicates**: Rep 1, Rep 2\n\
    \n**summary**: \n\n**output\\_type**: IDR thresholded peaks\n\n**audit\\_internal\\\
    _action**: Released analysis {ENCAN405QMO|/analyses/ENCAN405QMO/} has in progress\
    \ subobject document {9a074c7c-481c-4806-a97b-d514be685f50|/documents/9a074c7c-481c-4806-a97b-d514be685f50/}\n\
    \n**audit\\_internal\\_action**: Released analysis {ENCAN405QMO|/analyses/ENCAN405QMO/}\
    \ has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/}\n\
    \n**audit\\_warning**: Processed alignments file {ENCFF977QBD|/files/ENCFF977QBD/}\
    \ processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 16400329 usable fragments.\
    \ The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting\
    \ USF2-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**:\
    \ Processed alignments file {ENCFF213IWO|/files/ENCFF213IWO/} processed by ChIP-seq\
    \ ENCODE4 v1.6.1 GRCh38 pipeline has 13888550 usable fragments. The minimum ENCODE\
    \ standard for each replicate in a ChIP-seq experiment targeting USF2-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 {ENCFF196JQW|/files/ENCFF196JQW/}\
    \ processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline have a rescue ratio of\
    \ 1.11 and a self consistency ratio of 3.76. 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: ENCSR000DZU
    status: released
    assay_term_name: ChIP-seq
    simple_biosample_summary: ''
    biosample_summary: Homo sapiens GM12878
    replication_type: isogenic
    biosample_ontology: /biosample-types/cell_line_EFO_0002784/
    perturbed: false
    doi: 10.17989/ENCSR000DZU
    date_created: '2014-02-12T23:05:50.785894+00:00'
    date_released: '2011-10-29'
    submitter_comment: ''
    target: USF2
