type: position_score
table:
  filename: ENCFF355NVJ.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_ENCSR346JWH
  column_index: 3
  type: float
  desc: 'DNase-seq ENCSR346JWH [biosample_summary="Homo sapiens A673"]'
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'DNase-seq ENCSR346JWH [biosample_summary="Homo sapiens A673"]'
  description: "**status**: released\n\n**biological\\_replicates**: Rep 1\n\n**summary**:\
    \ \n\n**output\\_type**: peaks\n\n**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 {ENCFF261YSH|/files/ENCFF261YSH/}\
    \ processed by DNase-seq ENCODE4 v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/})\
    \ for GRCh38 assembly  have a SPOT1 score of 0.38. 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/})\n\
    \n**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 {ENCFF860UCH|/files/ENCFF860UCH/} processed by DNase-seq ENCODE4\
    \ v3.0.0-alpha.2 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/}) for GRCh38\
    \ assembly  have a SPOT1 score of 0.36. 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: ENCSR346JWH
    status: released
    assay_term_name: DNase-seq
    simple_biosample_summary: ''
    biosample_summary: Homo sapiens A673
    replication_type: isogenic
    biosample_ontology: /biosample-types/cell_line_EFO_0002106/
    perturbed: false
    doi: 10.17989/ENCSR346JWH
    date_created: '2014-09-26T06:22:26.087113+00:00'
    date_released: '2015-03-31'
    submitter_comment: ''