type: position_score
table:
  filename: ENCFF515ICG.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_ENCSR678RCY
  column_index: 3
  type: float
  desc: signal
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'ChIP-seq ENCSR678RCY [TISSUE: Homo sapiens T-helper 17 cell originated
    from blood cell, TARGET: H3K9me3]'
  description: "**status**: released\n\n**biological\\_replicates**: Rep 1\n\n**summary**:\
    \ \n\n**output\\_type**: pseudoreplicated peaks\n\n**audit\\_internal\\_action**:\
    \ Archived analysis {ENCAN649EAS|/analyses/ENCAN649EAS/} has in progress subobject\
    \ quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/}\n\
    \n**audit\\_not\\_compliant**: Processed redacted unfiltered alignments file {ENCFF731YRZ|/files/ENCFF731YRZ/}\
    \ processed by ChIP-seq ENCODE3 hg19 pipeline has 31340523 mapped reads. The minimum\
    \ ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K9me3-human\
    \ and investigated as a broad histone mark is 35 million mapped reads. 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**: 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 {ENCFF610ZHP|/files/ENCFF610ZHP/}\
    \ processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with\
    \ NRF value of 0.48.\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 {ENCFF610ZHP|/files/ENCFF610ZHP/}\
    \ processed by ChIP-seq ENCODE3 hg19 pipeline was generated from a library with\
    \ PBC1 value of 0.49.\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 {ENCFF610ZHP|/files/ENCFF610ZHP/} processed by ChIP-seq ENCODE3\
    \ hg19 pipeline was generated from a library with PBC2 value of 2.11."
  labels:
    reference_genome: hg38/genomes/GRCh38-hg38
    accession: ENCSR678RCY
    status: released
    assay_term_name: ChIP-seq
    simple_biosample_summary: ''
    biosample_summary: Homo sapiens T-helper 17 cell originated from blood cell
    replication_type: unreplicated
    biosample_ontology: /biosample-types/primary_cell_CL_0000899/
    perturbed: false
    doi: 10.17989/ENCSR678RCY
    date_created: '2015-09-15T19:49:08.337282+00:00'
    date_released: '2013-07-31'
    submitter_comment: ''
    target: H3K9me3