type: position_score
table:
  filename: ENCFF381CVI.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: ATAC-seq_ENCSR558ZSN
  column_index: 3
  type: float
  desc: 'ATAC-seq ENCSR558ZSN [biosample_summary="Homo sapiens activated T-cell female adult (21 years) treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 50 U/mL Interleukin-2 for 72 hours"]'
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'ATAC-seq ENCSR558ZSN [biosample_summary="Homo sapiens activated T-cell female adult (21 years) treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 50 U/mL Interleukin-2 for 72 hours"]'
  description: '**status**: released


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


    **summary**: female adult (21 years) treated with anti-CD3 and anti-CD28 coated
    beads for 72 hours, 50 U/mL Interleukin-2 for 72 hours


    **output\_type**: replicated peaks


    **audit\_internal\_action**: Released analysis {ENCAN936YOF|/analyses/ENCAN936YOF/}
    has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/}


    **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 < 0.7 is poor complexity, between 0.7 and 0.9 is moderate
    complexity, and >= 0.9 high complexity. NRF value > 0.9 is recommended, but >
    0.7 is acceptable. ENCODE processed file {ENCFF218OSF|/files/ENCFF218OSF/} processed
    by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with
    NRF value of 0.883735.


    **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 < 0.7 is poor complexity, between 0.7 and 0.9 is moderate
    complexity, and >= 0.9 high complexity. NRF value > 0.9 is recommended, but >
    0.7 is acceptable. ENCODE processed file {ENCFF287DFF|/files/ENCFF287DFF/} processed
    by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline was generated from a library with
    NRF value of 0.882192.


    **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 > 0.7 is acceptable. ENCODE processed file
    {ENCFF287DFF|/files/ENCFF287DFF/} processed by ATAC-seq ENCODE4 v1.10.0 GRCh38
    pipeline was generated from a library with a PBC1 value of 0.90.'
  labels:
    reference_genome: hg38/genomes/GRCh38-hg38
    accession: ENCSR558ZSN
    status: released
    assay_term_name: ATAC-seq
    simple_biosample_summary: female adult (21 years) treated with anti-CD3 and anti-CD28
      coated beads for 72 hours, 50 U/mL Interleukin-2 for 72 hours
    biosample_summary: Homo sapiens activated T-cell female adult (21 years) treated
      with anti-CD3 and anti-CD28 coated beads for 72 hours, 50 U/mL Interleukin-2
      for 72 hours
    replication_type: isogenic
    biosample_ontology: /biosample-types/primary_cell_NTR_0000537/
    perturbed: false
    doi: 10.17989/ENCSR558ZSN
    date_created: '2021-07-14T20:52:47.132570+00:00'
    date_released: '2021-09-09'
    submitter_comment: ''