type: position_score
table:
  filename: ENCFF291YMH.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: Histone_ChIP-seq_ENCSR291KBJ
  column_index: 3
  type: float
  desc: signal
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'ChIP-seq ENCSR291KBJ [TISSUE: Homo sapiens effector memory CD4-positive,
    alpha-beta T cell, TARGET: H3K4me3]'
  description: "**status**: released\n\n**biological\\_replicates**: Rep 1, Rep 2\n\
    \n**summary**: \n\n**output\\_type**: pseudoreplicated peaks\n\n**audit\\_internal\\\
    _action**: Released analysis {ENCAN306ATI|/analyses/ENCAN306ATI/} has in progress\
    \ subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/}\n\
    \n**audit\\_not\\_compliant**: Processed redacted alignments file {ENCFF449WLP|/files/ENCFF449WLP/}\
    \ processed by ChIP-seq ENCODE4 v1.7.0 GRCh38 pipeline has 9211562 usable fragments.\
    \ The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting\
    \ H3K4me3-human and investigated as a narrow histone mark 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\\\
    _not\\_compliant**: NRF (Non Redundant Fraction) is equal to the result of the\
    \ division of the number of reads after duplicates removal by the total number\
    \ of reads. An NRF value in the range 0 - 0.5 is poor complexity, 0.5 - 0.8 is\
    \ moderate complexity, and > 0.8 high complexity. NRF value > 0.8 is recommended,\
    \ but > 0.5 is acceptable. ENCODE processed redacted alignments file {ENCFF449WLP|/files/ENCFF449WLP/}\
    \ processed by ChIP-seq ENCODE4 v1.7.0 GRCh38 pipeline was generated from a library\
    \ with NRF value of 0.50.\n\n**audit\\_not\\_compliant**: PBC1 (PCR Bottlenecking\
    \ Coefficient 1, M1/M\\_distinct) is the ratio of the number of genomic locations\
    \ where exactly one read maps uniquely (M1) to the number of genomic locations\
    \ where some reads map (M\\_distinct). A PBC1 value in the range 0 - 0.5 is severe\
    \ bottlenecking, 0.5 - 0.8 is moderate bottlenecking, 0.8 - 0.9 is mild bottlenecking,\
    \ and > 0.9 is no bottlenecking. PBC1 value > 0.9 is recommended, but > 0.8 is\
    \ acceptable. ENCODE processed redacted alignments file {ENCFF449WLP|/files/ENCFF449WLP/}\
    \ processed by ChIP-seq ENCODE4 v1.7.0 GRCh38 pipeline was generated from a library\
    \ with PBC1 value of 0.47.\n\n**audit\\_warning**: Processed redacted alignments\
    \ file {ENCFF108MOM|/files/ENCFF108MOM/} processed by ChIP-seq ENCODE4 v1.7.0\
    \ GRCh38 pipeline has 13870058 usable fragments. The minimum ENCODE standard for\
    \ each replicate in a ChIP-seq experiment targeting H3K4me3-human and investigated\
    \ as a narrow histone mark 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**: PBC2 (PCR Bottlenecking\
    \ Coefficient 2, M1/M2) is the ratio of the number of genomic locations where\
    \ exactly one read maps uniquely (M1) to the number of genomic locations where\
    \ two reads map uniquely (M2). A PBC2 value in the range 0 - 1 is severe bottlenecking,\
    \ 1 - 3 is moderate bottlenecking, 3 - 10 is mild bottlenecking, > 10 is no bottlenecking.\
    \ PBC2 value > 10 is recommended, but > 3 is acceptable. ENCODE processed redacted\
    \ alignments file {ENCFF449WLP|/files/ENCFF449WLP/} processed by ChIP-seq ENCODE4\
    \ v1.7.0 GRCh38 pipeline was generated from a library with PBC2 value of 1.83."
  labels:
    reference_genome: hg38/genomes/GRCh38-hg38
    accession: ENCSR291KBJ
    status: released
    assay_term_name: ChIP-seq
    simple_biosample_summary: ''
    biosample_summary: Homo sapiens effector memory CD4-positive, alpha-beta T cell
    replication_type: anisogenic
    biosample_ontology: /biosample-types/primary_cell_CL_0000905/
    perturbed: false
    doi: 10.17989/ENCSR291KBJ
    date_created: '2015-09-15T19:49:05.290670+00:00'
    date_released: '2013-07-31'
    submitter_comment: The raw data from at least one replicate is not available to
      the ENCODE consortium.
    target: H3K4me3