type: position_score
table:
  filename: ENCFF089LSF.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_ENCSR775KMA
  column_index: 3
  type: float
  desc: 'ATAC-seq ENCSR775KMA [biosample_summary="Homo sapiens activated T-cell male adult (38 years) treated with 50 U/mL Interleukin-2 for 4 hours, anti-CD3 and anti-CD28 coated beads for 4 hours"]'
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'ATAC-seq ENCSR775KMA [biosample_summary="Homo sapiens activated T-cell male adult (38 years) treated with 50 U/mL Interleukin-2 for 4 hours, anti-CD3 and anti-CD28 coated beads for 4 hours"]'
  description: '**status**: released


    **biological\_replicates**: Rep 1


    **summary**: male adult (38 years) treated with 50 U/mL Interleukin-2 for 4 hours,
    anti-CD3 and anti-CD28 coated beads for 4 hours


    **output\_type**: pseudoreplicated peaks


    **audit\_internal\_action**: Released analysis {ENCAN243QOP|/analyses/ENCAN243QOP/}
    has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/}


    **audit\_warning**: Alignment file {ENCFF880NEB|/files/ENCFF880NEB/} processed
    by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline has 21803135 usable fragments. According
    to ENCODE4 standards, ATAC-seq assays processed by the uniform processing pipeline
    should have > 25 million usable fragments. 20-25 million is acceptable and < 15
    million is not compliant.


    **audit\_warning**: According to ENCODE4 standards, ATAC-seq assays processed
    by the uniform processing pipeline should have either >150k reproducible peaks
    in an overlap peaks file, or >70k in an IDR thresholded peaks file. 100-150k or
    50-70k peaks respectively is acceptable, and <100k or <50k respectively is not
    compliant. File(s) {ENCFF089LSF|/files/ENCFF089LSF/} (overlap peaks) and {ENCFF760LQQ|/files/ENCFF760LQQ/}
    (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v1.10.0 GRCh38 pipeline
    have 99952 and 63133 peaks.'
  labels:
    reference_genome: hg38/genomes/GRCh38-hg38
    accession: ENCSR775KMA
    status: released
    assay_term_name: ATAC-seq
    simple_biosample_summary: male adult (38 years) treated with 50 U/mL Interleukin-2
      for 4 hours, anti-CD3 and anti-CD28 coated beads for 4 hours
    biosample_summary: Homo sapiens activated T-cell male adult (38 years) treated
      with 50 U/mL Interleukin-2 for 4 hours, anti-CD3 and anti-CD28 coated beads
      for 4 hours
    replication_type: unreplicated
    biosample_ontology: /biosample-types/primary_cell_NTR_0000537/
    perturbed: false
    doi: 10.17989/ENCSR775KMA
    date_created: '2021-01-22T20:41:56.320072+00:00'
    date_released: '2021-06-24'
    submitter_comment: ''
