type: position_score
table:
  filename: ENCFF576SDC.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_ENCSR978EQY
  column_index: 3
  type: float
  desc: signal
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'ChIP-seq ENCSR978EQY [TISSUE: Homo sapiens HEK293 genetically modified
    (insertion) using site-specific recombination targeting H. sapiens GLI2, TARGET:
    GLI2]'
  description: '**status**: released


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


    **summary**: genetically modified (insertion) using site-specific recombination
    targeting H. sapiens GLI2


    **output\_type**: IDR thresholded peaks


    **audit\_internal\_action**: Released analysis {ENCAN576IFR|/analyses/ENCAN576IFR/}
    has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/}


    **audit\_warning**: Processed alignments file {ENCFF301XIL|/files/ENCFF301XIL/}
    processed by ChIP-seq ENCODE4 GRCh38 pipeline has 18197180 usable fragments. The
    minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting
    GLI2-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/} )


    **audit\_warning**: Replicate concordance in ChIP-seq experiments is measured
    by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR
    thresholded peaks files {ENCFF576SDC|/files/ENCFF576SDC/} processed by ChIP-seq
    ENCODE4 GRCh38 pipeline have a rescue ratio of 1.74 and a self consistency ratio
    of 4.65. 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.


    **audit\_warning**: Replicate concordance in ChIP-seq experiments is measured
    by calculating IDR values (Irreproducible Discovery Rate). ENCODE processed IDR
    thresholded peaks files {ENCFF700EUN|/files/ENCFF700EUN/} processed by ChIP-seq
    ENCODE4 GRCh38 pipeline have a rescue ratio of 1.74 and a self consistency ratio
    of 4.65. 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: ENCSR978EQY
    status: released
    assay_term_name: ChIP-seq
    simple_biosample_summary: genetically modified (insertion) using site-specific
      recombination targeting H. sapiens GLI2
    biosample_summary: Homo sapiens HEK293 genetically modified (insertion) using
      site-specific recombination targeting H. sapiens GLI2
    replication_type: isogenic
    biosample_ontology: /biosample-types/cell_line_EFO_0001182/
    perturbed: false
    doi: 10.17989/ENCSR978EQY
    date_created: '2016-03-29T17:49:10.864539+00:00'
    date_released: '2017-04-06'
    submitter_comment: ''
    target: GLI2