type: position_score
table:
  filename: ENCFF950LQM.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_ENCSR000EZD
  column_index: 3
  type: float
  desc: 'TF_ChIP-seq ENCSR000EZD [biosample_summary="Homo sapiens HeLa-S3" and target="MYC"]'
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'TF_ChIP-seq ENCSR000EZD [biosample_summary="Homo sapiens HeLa-S3" and target="MYC"]'
  description: "**status**: released\n\n**biological\\_replicates**: Rep 1, Rep 2\n\
    \n**summary**: \n\n**output\\_type**: optimal IDR thresholded peaks\n\n**audit\\\
    _error**: Processed alignments file {ENCFF406ZWO|/files/ENCFF406ZWO/} processed\
    \ by ChIP-seq ENCODE3 hg19 pipeline has 4174695 usable fragments. The minimum\
    \ ENCODE standard for each replicate in a ChIP-seq experiment targeting MYC-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**: Archived analysis {ENCAN059PRX|/analyses/ENCAN059PRX/} has in progress\
    \ subobject quality standard {encode3-tf-chip|/quality-standards/encode3-tf-chip/}\n\
    \n**audit\\_not\\_compliant**: Processed alignments file {ENCFF628WKV|/files/ENCFF628WKV/}\
    \ processed by ChIP-seq ENCODE3 hg19 pipeline has 6209386 usable fragments. The\
    \ minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting\
    \ MYC-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 {ENCFF891KEP|/files/ENCFF891KEP/}, {ENCFF950LQM|/files/ENCFF950LQM/} processed\
    \ by ChIP-seq ENCODE3 hg19 pipeline have a rescue ratio of 1.42 and a self consistency\
    \ ratio of 3.01. 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.\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 {ENCFF932YPQ|/files/ENCFF932YPQ/},\
    \ {ENCFF623SJG|/files/ENCFF623SJG/} processed by ChIP-seq ENCODE3 hg19 pipeline\
    \ have a rescue ratio of 1.42 and a self consistency ratio of 3.01. 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: ENCSR000EZD
    status: released
    assay_term_name: ChIP-seq
    simple_biosample_summary: ''
    biosample_summary: Homo sapiens HeLa-S3
    replication_type: isogenic
    biosample_ontology: /biosample-types/cell_line_EFO_0002791/
    perturbed: false
    doi: 10.17989/ENCSR000EZD
    date_created: '2013-12-12T07:14:37.989134+00:00'
    date_released: '2011-10-29'
    submitter_comment: ''
    target: MYC
