type: position_score
table:
  filename: ENCFF736LDI.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: DNase-seq_ENCSR964WHY
  column_index: 3
  type: float
  desc: 'DNase-seq ENCSR964WHY [biosample_summary="Homo sapiens H9 G1b phase stably expressing CDT1, stably expressing GMNN"]'
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'DNase-seq ENCSR964WHY [biosample_summary="Homo sapiens H9 G1b phase stably expressing CDT1, stably expressing GMNN"]'
  description: '**status**: released


    **biological\_replicates**: Rep 1


    **summary**: stably expressing C-terminal DsRed-tagged CDT1, stably expressing
    N-terminal eGFP-tagged GMNN G1b phase


    **output\_type**: peaks


    **audit\_error**: Signal Portion of Tags (SPOT) is a measure of enrichment, analogous
    to the commonly used fraction of reads in peaks metric. ENCODE processed alignment
    files {ENCFF308PNO|/files/ENCFF308PNO/} processed by DNase-seq ENCODE4 v3.0.0-alpha.2
    GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38 assembly  have
    a SPOT1 score of 0.23. According to ENCODE standards, SPOT1 score of 0.4 or higher
    is considered a product of high quality data. Any sample with a SPOT1 score <0.3
    should be targeted for replacement with a higher quality sample, and a SPOT1 score
    of 0.25 is considered minimally acceptable SPOT1 score of 0.25 is considered minimally
    acceptable for rare and hard to find primary tissues. (See {ENCODE DNase-seq data
    standards|/data-standards/dnase-seq-encode4/})


    **audit\_warning**: Signal Portion of Tags (SPOT) is a measure of enrichment,
    analogous to the commonly used fraction of reads in peaks metric. ENCODE processed
    alignment files {ENCFF347LOI|/files/ENCFF347LOI/} processed by DNase-seq ENCODE4
    v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38
    assembly  have a SPOT1 score of 0.29. According to ENCODE standards, SPOT1 score
    of 0.4 or higher is considered a product of high quality data. Any sample with
    a SPOT1 score <0.3 should be targeted for replacement with a higher quality sample,
    and a SPOT1 score of 0.25 is considered minimally acceptable SPOT1 score of 0.25
    is considered minimally acceptable for rare and hard to find primary tissues.
    (See {ENCODE DNase-seq data standards|/data-standards/dnase-seq-encode4/})'
  labels:
    reference_genome: hg38/genomes/GRCh38-hg38
    accession: ENCSR964WHY
    status: released
    assay_term_name: DNase-seq
    simple_biosample_summary: stably expressing C-terminal DsRed-tagged CDT1, stably
      expressing N-terminal eGFP-tagged GMNN G1b phase
    biosample_summary: Homo sapiens H9 G1b phase stably expressing CDT1, stably expressing
      GMNN
    replication_type: isogenic
    biosample_ontology: /biosample-types/cell_line_EFO_0003045/
    perturbed: false
    doi: 10.17989/ENCSR964WHY
    date_created: '2016-03-30T17:23:15.653670+00:00'
    date_released: '2016-08-01'
    submitter_comment: late G1