type: position_score
table:
  filename: ENCFF866CDK.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_ENCSR397HSO
  column_index: 3
  type: float
  desc: signal
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'ChIP-seq ENCSR397HSO [TISSUE: Homo sapiens neural cell originated from
    H1, TARGET: H3K9me2]'
  description: '**status**: released


    **biological\_replicates**: Rep 1, Rep 2


    **summary**: male embryo


    **output\_type**: replicated peaks


    **audit\_internal\_action**: Archived analysis {ENCAN981YIR|/analyses/ENCAN981YIR/}
    has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/}


    **audit\_not\_compliant**: Processed alignments file {ENCFF331MAR|/files/ENCFF331MAR/}
    processed by ChIP-seq ENCODE3 hg19 pipeline has 23361361 usable fragments. The
    minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting
    H3K9me2-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/})


    **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 {ENCFF478GTE|/files/ENCFF478GTE/} processed by ChIP-seq ENCODE3 hg19 pipeline
    was generated from a library with PBC1 value of 0.87.


    **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 {ENCFF478GTE|/files/ENCFF478GTE/}
    processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with
    PBC2 value of 7.71.'
  labels:
    reference_genome: hg38/genomes/GRCh38-hg38
    accession: ENCSR397HSO
    status: released
    assay_term_name: ChIP-seq
    simple_biosample_summary: male embryo
    biosample_summary: Homo sapiens neural cell originated from H1
    replication_type: isogenic
    biosample_ontology: /biosample-types/in_vitro_differentiated_cells_CL_0002319/
    perturbed: false
    doi: 10.17989/ENCSR397HSO
    date_created: '2015-05-20T20:39:00.326047+00:00'
    date_released: '2016-10-25'
    submitter_comment: As of June 22, 2017, control ENCSR308JFE requires new bams.
      New files will be processed for its downstream experiments.
    target: H3K9me2
