type: position_score
table:
  filename: ENCFF926ZHI.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_ENCSR180AAB
  column_index: 3
  type: float
  desc: 'Histone_ChIP-seq ENCSR180AAB [biosample_summary="Homo sapiens PC-9" and target="H3F3A"]'
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'Histone_ChIP-seq ENCSR180AAB [biosample_summary="Homo sapiens PC-9" and target="H3F3A"]'
  description: "**status**: archived\n\n**biological\\_replicates**: Rep 1, Rep 2\n\
    \n**summary**: \n\n**output\\_type**: replicated peaks\n\n**audit\\_internal\\\
    _action**: Archived analysis {ENCAN341FIH|/analyses/ENCAN341FIH/} has in progress\
    \ subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/}\n\
    \n**audit\\_not\\_compliant**: Processed alignments file {ENCFF763ZGF|/files/ENCFF763ZGF/}\
    \ processed by ChIP-seq ENCODE3 GRCh38 pipeline has 19538231 usable fragments.\
    \ The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting\
    \ H3F3A-human and investigated as a broad histone mark is 20 million usable fragments.\
    \ The recommended value is > 45 million, but > 35 million is acceptable. (See\
    \ {ENCODE ChIP-seq data standards|/data-standards/chip-seq/})\n\n**audit\\_warning**:\
    \ Processed alignments file {ENCFF792YEO|/files/ENCFF792YEO/} processed by ChIP-seq\
    \ ENCODE3 GRCh38 pipeline has 39505078 usable fragments. The minimum ENCODE standard\
    \ for each replicate in a ChIP-seq experiment targeting H3F3A-human and investigated\
    \ as a broad histone mark is 20 million usable fragments. The recommended value\
    \ is > 45 million, but > 35 million is acceptable. (See {ENCODE ChIP-seq data\
    \ standards|/data-standards/chip-seq/})\n\n**audit\\_warning**: 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 {ENCFF763ZGF|/files/ENCFF763ZGF/}\
    \ processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with\
    \ PBC1 value of 0.81.\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 alignments\
    \ file {ENCFF763ZGF|/files/ENCFF763ZGF/} processed by ChIP-seq ENCODE3 GRCh38\
    \ pipeline was generated from a library with PBC2 value of 5.00."
  labels:
    reference_genome: hg38/genomes/GRCh38-hg38
    accession: ENCSR180AAB
    status: released
    assay_term_name: ChIP-seq
    simple_biosample_summary: ''
    biosample_summary: Homo sapiens PC-9
    replication_type: isogenic
    biosample_ontology: /biosample-types/cell_line_EFO_0002847/
    perturbed: false
    doi: 10.17989/ENCSR180AAB
    date_created: '2014-10-24T16:25:45.932958+00:00'
    date_released: '2017-01-18'
    submitter_comment: ''
    target: H3F3A