type: position_score
table:
  filename: ENCFF062RTM.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_ENCSR000EJX
  column_index: 3
  type: float
  desc: 'DNase-seq ENCSR000EJX [biosample_summary="Homo sapiens HPDE6-E6E7"]'
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: 'DNase-seq ENCSR000EJX [biosample_summary="Homo sapiens HPDE6-E6E7"]'
  description: "**status**: released\n\n**biological\\_replicates**: Rep 1\n\n**summary**:\
    \ \n\n**output\\_type**: peaks\n\n**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 {ENCFF908JAN|/files/ENCFF908JAN/}\
    \ processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/})\
    \ for GRCh38 assembly  have a SPOT1 score of 0.21. 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\\_internal\\_action**: Released analysis {ENCAN448GGM|/analyses/ENCAN448GGM/}\
    \ has in progress subobject document {6219c330-069c-401f-90f7-8d67307f3f23|/documents/6219c330-069c-401f-90f7-8d67307f3f23/}\n\
    \n**audit\\_warning**: Replicate 1\\_2 has no significant footprints detected.\n\
    \n**audit\\_warning**: Replicate 1\\_1 has no significant footprints detected."
  labels:
    reference_genome: hg38/genomes/GRCh38-hg38
    accession: ENCSR000EJX
    status: released
    assay_term_name: DNase-seq
    simple_biosample_summary: ''
    biosample_summary: Homo sapiens HPDE6-E6E7
    replication_type: unreplicated
    biosample_ontology: /biosample-types/cell_line_EFO_0005711/
    perturbed: false
    doi: 10.17989/ENCSR000EJX
    date_created: '2013-12-12T07:07:36.776182+00:00'
    date_released: '2011-04-19'
    submitter_comment: ''
