type: position_score
table:
  filename: ENCFF064CWA.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_ENCSR000EWL
  column_index: 3
  type: float
  desc: 'TF_ChIP-seq ENCSR000EWL [biosample_summary="Homo sapiens K562" and target="E2F4"]'
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'TF_ChIP-seq ENCSR000EWL [biosample_summary="Homo sapiens K562" and target="E2F4"]'
  description: "**status**: released\n\n**biological\\_replicates**: Rep 1, Rep 2\n\
    \n**summary**: \n\n**output\\_type**: IDR thresholded peaks\n\n**audit\\_error**:\
    \ Processed alignments file {ENCFF161EVY|/files/ENCFF161EVY/} processed by ChIP-seq\
    \ ENCODE4 v1.6.1 GRCh38 pipeline has 3283420 usable fragments. The minimum ENCODE\
    \ standard for each replicate in a ChIP-seq experiment targeting E2F4-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**:\
    \ Released analysis {ENCAN420LQF|/analyses/ENCAN420LQF/} has in progress subobject\
    \ document {ac90f228-15f9-4cbc-a6f7-4e636813cb2b|/documents/ac90f228-15f9-4cbc-a6f7-4e636813cb2b/}\n\
    \n**audit\\_internal\\_action**: Released analysis {ENCAN420LQF|/analyses/ENCAN420LQF/}\
    \ has in progress subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/}\n\
    \n**audit\\_not\\_compliant**: Processed alignments file {ENCFF095AMG|/files/ENCFF095AMG/}\
    \ processed by ChIP-seq ENCODE4 v1.6.1 GRCh38 pipeline has 6480723 usable fragments.\
    \ The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting\
    \ E2F4-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 {ENCFF064CWA|/files/ENCFF064CWA/} processed by ChIP-seq ENCODE4 v1.6.1\
    \ GRCh38 pipeline have a rescue ratio of 1.15 and a self consistency ratio of\
    \ 2.39. 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: ENCSR000EWL
    status: released
    assay_term_name: ChIP-seq
    simple_biosample_summary: ''
    biosample_summary: Homo sapiens K562
    replication_type: isogenic
    biosample_ontology: /biosample-types/cell_line_EFO_0002067/
    perturbed: false
    doi: 10.17989/ENCSR000EWL
    date_created: '2014-02-12T23:01:09.541918+00:00'
    date_released: '2011-10-29'
    submitter_comment: 'Fastq file ENCFF000YMI contains reads of mixed lengths. Read
      lengths followed by respective number of reads: (27, 4593325), (35, 2690976).      Peak
      calling failed for hg19, and efforts to understand the problem are ongoing.'
    target: E2F4
