type: position_score
table:
  filename: ENCFF407YHM.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_ENCSR736CIN
  column_index: 3
  type: float
  desc: 'ATAC-seq ENCSR736CIN [biosample_summary="Homo sapiens left cardiac atrium tissue female adult (66 years)"]'
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'ATAC-seq ENCSR736CIN [biosample_summary="Homo sapiens left cardiac atrium tissue female adult (66 years)"]'
  description: '**status**: released


    **biological\_replicates**: Rep 1


    **summary**: female adult (66 years)


    **output\_type**: pseudoreplicated peaks


    **audit\_internal\_action**: Released analysis {ENCAN778YTF|/analyses/ENCAN778YTF/}
    has in progress subobject quality standard {encode4-atac-seq|/quality-standards/encode4-atac-seq/}


    **audit\_not\_compliant**: According to ENCODE4 standards, overlap peaks files
    in ATAC-seq assays processed by the uniform processing pipeline should have FRiP
    (fraction of reads in called peak regions) scores > 0.3. FRiP scores 0.2-0.3 are
    acceptable, and < 0.2 are not compliant. {ENCFF407YHM|/files/ENCFF407YHM/} processed
    by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline  has a FRiP score of 0.17.


    **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 {ENCFF493IIE|/files/ENCFF493IIE/} processed
    by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline was generated from a library with NRF
    value of 0.871826.


    **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) {ENCFF407YHM|/files/ENCFF407YHM/} (overlap peaks) and {ENCFF239PZJ|/files/ENCFF239PZJ/}
    (IDR thresholded peaks) processed by ATAC-seq ENCODE4 v1.9.1 GRCh38 pipeline have
    108670 and 48544 peaks.'
  labels:
    reference_genome: hg38/genomes/GRCh38-hg38
    accession: ENCSR736CIN
    status: released
    assay_term_name: ATAC-seq
    simple_biosample_summary: female adult (66 years)
    biosample_summary: Homo sapiens left cardiac atrium tissue female adult (66 years)
    replication_type: unreplicated
    biosample_ontology: /biosample-types/tissue_UBERON_0002079/
    perturbed: false
    doi: 10.17989/ENCSR736CIN
    date_created: '2019-05-25T04:33:42.105827+00:00'
    date_released: '2022-06-16'
    submitter_comment: Despite lower enrichment scores and peaks, sequence-based predictive
      models (neural networks) fit to these data reveal useful motifs and motif annotations.
      Given the value of these rare samples, we release them with an enrichment QC
      warning indicating that these data likely have lower sensitivity for detecting
      accessible regulatory elements.