type: position_score
table:
  filename: ENCFF985GWM.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_ENCSR000DSR
  column_index: 3
  type: float
  desc: signal
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'ChIP-seq ENCSR000DSR [TISSUE: Homo sapiens H7, TARGET: H3K4me3]'
  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 {ENCAN250SQO|/analyses/ENCAN250SQO/} has in progress\
    \ subobject quality standard {encode4-histone-chip|/quality-standards/encode4-histone-chip/}\n\
    \n**audit\\_internal\\_action**: Released analysis {ENCAN250SQO|/analyses/ENCAN250SQO/}\
    \ has in progress subobject document {73fc660a-a655-43b8-9b1c-965f3e00c476|/documents/73fc660a-a655-43b8-9b1c-965f3e00c476/}\n\
    \n**audit\\_not\\_compliant**: Processed alignments file {ENCFF313GZU|/files/ENCFF313GZU/}\
    \ processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline has 7795856 usable fragments.\
    \ The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting\
    \ H3K4me3-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/})\n\n**audit\\\
    _warning**: Processed alignments file {ENCFF400ZZX|/files/ENCFF400ZZX/} processed\
    \ by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline has 13353446 usable fragments. The\
    \ minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting\
    \ H3K4me3-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/})\n\n**audit\\\
    _warning**: 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 {ENCFF313GZU|/files/ENCFF313GZU/}\
    \ processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library\
    \ with NRF value of 0.71.\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 {ENCFF313GZU|/files/ENCFF313GZU/} processed\
    \ by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with\
    \ PBC1 value of 0.76.\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 {ENCFF313GZU|/files/ENCFF313GZU/} processed by ChIP-seq ENCODE4 v1.5.1\
    \ GRCh38 pipeline was generated from a library with PBC2 value of 4.76.\n\n**audit\\\
    _warning**: 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 {ENCFF400ZZX|/files/ENCFF400ZZX/}\
    \ processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library\
    \ with NRF value of 0.71.\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 {ENCFF400ZZX|/files/ENCFF400ZZX/} processed\
    \ by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library with\
    \ PBC1 value of 0.73.\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 {ENCFF400ZZX|/files/ENCFF400ZZX/} processed by ChIP-seq ENCODE4 v1.5.1\
    \ GRCh38 pipeline was generated from a library with PBC2 value of 4.04."
  labels:
    reference_genome: hg38/genomes/GRCh38-hg38
    accession: ENCSR000DSR
    status: released
    assay_term_name: ChIP-seq
    simple_biosample_summary: ''
    biosample_summary: Homo sapiens H7
    replication_type: isogenic
    biosample_ontology: /biosample-types/cell_line_EFO_0005904/
    perturbed: false
    doi: 10.17989/ENCSR000DSR
    date_created: '2013-12-12T06:57:17.030506+00:00'
    date_released: '2011-02-11'
    submitter_comment: Replicate 1,1 of this experiment was previously attributed
      to biosample ENCBS293AAA and replicate 2,1 of this experiment was previously
      attributed to biosample ENCBS293AAA but they have since been corrected to the
      current biosamples. Please note that the biosample term has remain unchanged.
    target: H3K4me3