type: position_score
table:
  filename: ENCFF902PJA.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_ENCSR754KCC
  column_index: 3
  type: float
  desc: 'TF_ChIP-seq ENCSR754KCC [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KDM2A" and target="KDM2A"]'
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'TF_ChIP-seq ENCSR754KCC [biosample_summary="Homo sapiens HepG2 genetically modified (insertion) using CRISPR targeting H. sapiens KDM2A" and target="KDM2A"]'
  description: '**status**: released


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


    **summary**: genetically modified (insertion) using CRISPR targeting H. sapiens
    KDM2A


    **output\_type**: IDR thresholded peaks


    **audit\_internal\_action**: Released analysis {ENCAN575LOA|/analyses/ENCAN575LOA/}
    has in progress subobject document {17d50b0b-14be-46b1-a862-2dc37bd22d2d|/documents/17d50b0b-14be-46b1-a862-2dc37bd22d2d/}


    **audit\_internal\_action**: Released analysis {ENCAN575LOA|/analyses/ENCAN575LOA/}
    has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/}


    **audit\_warning**: Processed alignments file {ENCFF848LAB|/files/ENCFF848LAB/}
    processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline has 19466049 usable fragments.
    The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting
    KDM2A-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**: Processed alignments file {ENCFF630UOL|/files/ENCFF630UOL/}
    processed by ChIP-seq ENCODE4 v1.4.0 GRCh38 pipeline has 19663471 usable fragments.
    The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting
    KDM2A-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 {ENCFF902PJA|/files/ENCFF902PJA/} processed by ChIP-seq
    ENCODE4 v1.4.0 GRCh38 pipeline have a rescue ratio of 1.14 and a self consistency
    ratio of 2.35. 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 {ENCFF491GTR|/files/ENCFF491GTR/} processed by ChIP-seq
    ENCODE4 v1.4.0 GRCh38 pipeline have a rescue ratio of 1.14 and a self consistency
    ratio of 2.35. 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: ENCSR754KCC
    status: released
    assay_term_name: ChIP-seq
    simple_biosample_summary: genetically modified (insertion) using CRISPR targeting
      H. sapiens KDM2A
    biosample_summary: Homo sapiens HepG2 genetically modified (insertion) using CRISPR
      targeting H. sapiens KDM2A
    replication_type: isogenic
    biosample_ontology: /biosample-types/cell_line_EFO_0001187/
    perturbed: false
    doi: 10.17989/ENCSR754KCC
    date_created: '2018-03-06T23:49:07.201420+00:00'
    date_released: '2020-07-09'
    submitter_comment: ''
    target: KDM2A
