type: position_score
table:
  filename: ENCFF595UXF.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_ENCSR197XDQ
  column_index: 3
  type: float
  desc: 'Histone_ChIP-seq ENCSR197XDQ [biosample_summary="Homo sapiens MCF-7" and target="H3F3A"]'
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'Histone_ChIP-seq ENCSR197XDQ [biosample_summary="Homo sapiens MCF-7" and target="H3F3A"]'
  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 {ENCAN239WKA|/analyses/ENCAN239WKA/} has in progress\
    \ subobject document {a7fa7cec-df17-4b7d-8e31-50118d958736|/documents/a7fa7cec-df17-4b7d-8e31-50118d958736/}\n\
    \n**audit\\_internal\\_action**: Released analysis {ENCAN239WKA|/analyses/ENCAN239WKA/}\
    \ has in progress subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/}\n\
    \n**audit\\_not\\_compliant**: Processed alignments file {ENCFF183HME|/files/ENCFF183HME/}\
    \ processed by ChIP-seq ENCODE4 v1.6.0 GRCh38 pipeline has 32569135 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\\_not\\\
    _compliant**: Processed alignments file {ENCFF626ORM|/files/ENCFF626ORM/} processed\
    \ by ChIP-seq ENCODE4 v1.6.0 GRCh38 pipeline has 22407444 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\
    \ {ENCFF626ORM|/files/ENCFF626ORM/} processed by ChIP-seq ENCODE4 v1.6.0 GRCh38\
    \ pipeline was generated from a library with PBC1 value of 0.83.\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 {ENCFF626ORM|/files/ENCFF626ORM/}\
    \ processed by ChIP-seq ENCODE4 v1.6.0 GRCh38 pipeline was generated from a library\
    \ with PBC2 value of 5.76."
  labels:
    reference_genome: hg38/genomes/GRCh38-hg38
    accession: ENCSR197XDQ
    status: released
    assay_term_name: ChIP-seq
    simple_biosample_summary: ''
    biosample_summary: Homo sapiens MCF-7
    replication_type: isogenic
    biosample_ontology: /biosample-types/cell_line_EFO_0001203/
    perturbed: false
    doi: 10.17989/ENCSR197XDQ
    date_created: '2014-10-24T16:21:24.225466+00:00'
    date_released: '2016-10-25'
    submitter_comment: ''
    target: H3F3A