type: position_score
table:
  filename: ENCFF127VTB.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: TF_ChIP-seq_ENCSR000DYB
  column_index: 3
  type: float
  desc: 'TF_ChIP-seq ENCSR000DYB [biosample_summary="Homo sapiens WI38" and target="CTCF"]'
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'TF_ChIP-seq ENCSR000DYB [biosample_summary="Homo sapiens WI38" and target="CTCF"]'
  description: "**status**: released\n\n**biological\\_replicates**: Rep 1, Rep 2\n\
    \n**summary**: \n\n**output\\_type**: IDR thresholded peaks\n\n**audit\\_internal\\\
    _action**: Released analysis {ENCAN975LTW|/analyses/ENCAN975LTW/} has in progress\
    \ subobject quality standard {encode4-tf-chip|/quality-standards/encode4-tf-chip/}\n\
    \n**audit\\_internal\\_action**: Released analysis {ENCAN975LTW|/analyses/ENCAN975LTW/}\
    \ has in progress subobject document {3daa3ca6-d3a3-45a0-8187-69238267a5f1|/documents/3daa3ca6-d3a3-45a0-8187-69238267a5f1/}\n\
    \n**audit\\_warning**: Processed alignments file {ENCFF822DES|/files/ENCFF822DES/}\
    \ processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline has 10250608 usable fragments.\
    \ The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting\
    \ CTCF-human and investigated as a transcription factor 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 {ENCFF998YSJ|/files/ENCFF998YSJ/} processed by ChIP-seq\
    \ ENCODE4 v1.5.1 GRCh38 pipeline has 10558030 usable fragments. The minimum ENCODE\
    \ standard for each replicate in a ChIP-seq experiment targeting CTCF-human and\
    \ investigated as a transcription factor 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**: 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 {ENCFF822DES|/files/ENCFF822DES/}\
    \ processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library\
    \ with PBC1 value of 0.82.\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 {ENCFF822DES|/files/ENCFF822DES/} processed by ChIP-seq ENCODE4 v1.5.1\
    \ GRCh38 pipeline was generated from a library with PBC2 value of 5.48.\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\
    \ {ENCFF998YSJ|/files/ENCFF998YSJ/} processed by ChIP-seq ENCODE4 v1.5.1 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 {ENCFF998YSJ|/files/ENCFF998YSJ/}\
    \ processed by ChIP-seq ENCODE4 v1.5.1 GRCh38 pipeline was generated from a library\
    \ with PBC2 value of 5.61."
  labels:
    reference_genome: hg38/genomes/GRCh38-hg38
    accession: ENCSR000DYB
    status: released
    assay_term_name: ChIP-seq
    simple_biosample_summary: ''
    biosample_summary: Homo sapiens WI38
    replication_type: isogenic
    biosample_ontology: /biosample-types/cell_line_EFO_0001260/
    perturbed: false
    doi: 10.17989/ENCSR000DYB
    date_created: '2014-02-12T22:40:55.523811+00:00'
    date_released: '2012-01-17'
    submitter_comment: Replicate 2,1 of this experiment was previously attributed
      to biosample ENCBS606ENC but it has since been corrected to the current biosample.
      Please note that the biosample term has remain unchanged.
    target: CTCF