type: position_score
table:
  filename: ENCFF434KGU.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_ENCSR543CPW
  column_index: 3
  type: float
  desc: signal
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'ChIP-seq ENCSR543CPW [TISSUE: Homo sapiens small intestine tissue male
    adult (34 years), TARGET: H3K27ac]'
  description: '**status**: released


    **biological\_replicates**: Rep 1


    **summary**: male adult (34 years)


    **output\_type**: pseudoreplicated peaks


    **audit\_internal\_action**: Archived analysis {ENCAN610ZRO|/analyses/ENCAN610ZRO/}
    has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/}


    **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 alignments file {ENCFF429QHU|/files/ENCFF429QHU/}
    processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with
    NRF value of 0.35.


    **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 alignments
    file {ENCFF429QHU|/files/ENCFF429QHU/} processed by ChIP-seq ENCODE3 GRCh38 pipeline
    was generated from a library with PBC1 value of 0.46.


    **audit\_warning**: Processed alignments file {ENCFF429QHU|/files/ENCFF429QHU/}
    processed by ChIP-seq ENCODE3 GRCh38 pipeline has 15318514 usable fragments. The
    minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting
    H3K27ac-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/})


    **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 alignments file {ENCFF429QHU|/files/ENCFF429QHU/}
    processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with
    PBC2 value of 2.14.'
  labels:
    reference_genome: hg38/genomes/GRCh38-hg38
    accession: ENCSR543CPW
    status: released
    assay_term_name: ChIP-seq
    simple_biosample_summary: male adult (34 years)
    biosample_summary: Homo sapiens small intestine tissue male adult (34 years)
    replication_type: unreplicated
    biosample_ontology: /biosample-types/tissue_UBERON_0002108/
    perturbed: false
    doi: 10.17989/ENCSR543CPW
    date_created: '2015-10-01T07:16:45.826001+00:00'
    date_released: '2013-07-31'
    submitter_comment: ''
    target: H3K27ac