type: position_score
table:
  filename: ENCFF872RSG.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_ENCSR000EVM
  column_index: 3
  type: float
  desc: 'TF_ChIP-seq ENCSR000EVM [biosample_summary="Homo sapiens HeLa-S3 stably expressing E2F1" and target="E2F1"]'
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'TF_ChIP-seq ENCSR000EVM [biosample_summary="Homo sapiens HeLa-S3 stably expressing E2F1" and target="E2F1"]'
  description: '**status**: released


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


    **summary**: stably expressing N-terminal HA-tagged E2F1


    **output\_type**: IDR thresholded peaks


    **audit\_error**: Processed alignments file {ENCFF250EHY|/files/ENCFF250EHY/}
    processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 3893368 usable fragments.
    The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting
    E2F1-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\_internal\_action**: Released analysis {ENCAN469TLP|/analyses/ENCAN469TLP/}
    has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/}


    **audit\_internal\_action**: Released analysis {ENCAN469TLP|/analyses/ENCAN469TLP/}
    has in progress subobject document {7b5c9829-16ab-4d13-b465-42fcd791d328|/documents/7b5c9829-16ab-4d13-b465-42fcd791d328/}


    **audit\_not\_compliant**: Processed alignments file {ENCFF900XOM|/files/ENCFF900XOM/}
    processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 9443505 usable fragments.
    The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting
    E2F1-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 {ENCFF872RSG|/files/ENCFF872RSG/} processed by ChIP-seq
    ENCODE4 v1.6.1 GRCh38 pipeline have a rescue ratio of 1.02 and a self consistency
    ratio of 2.09. 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: ENCSR000EVM
    status: released
    assay_term_name: ChIP-seq
    simple_biosample_summary: stably expressing N-terminal HA-tagged E2F1
    biosample_summary: Homo sapiens HeLa-S3 stably expressing E2F1
    replication_type: isogenic
    biosample_ontology: /biosample-types/cell_line_EFO_0002791/
    perturbed: false
    doi: 10.17989/ENCSR000EVM
    date_created: '2014-01-13T00:02:55.318468+00:00'
    date_released: '2011-10-29'
    submitter_comment: ''
    target: E2F1
