type: position_score
table:
  filename: ENCFF253LML.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_ENCSR636DIR
  column_index: 3
  type: float
  desc: signal
  histogram:
    type: number
    number_of_bins: 100
meta:
  summary: "DNase-seq ENCSR636DIR [TISSUE: Homo sapiens activated T-helper 1 cell\
    \ male adult (35 years) treated with anti-CD3 and anti-CD28 coated beads for 24\
    \ hours, 30 ng/mL Interleukin-12 subunit beta for 36 hours, 10 ng/mL Interleukin-2\
    \ for 14 days, anti-CD3 and anti-CD28 coated beads for 14 days, 1 \u03BCg/mL Interleukin-4\
    \ antibody for 36 hours, 30 ng/mL Interleukin-12 subunit alpha for 36 hours]"
  description: "**status**: released\n\n**biological\\_replicates**: Rep 1\n\n**summary**:\
    \ male adult (35 years) treated with anti-CD3 and anti-CD28 coated beads for 24\
    \ hours, 30 ng/mL Interleukin-12 subunit beta for 36 hours, 10 ng/mL Interleukin-2\
    \ for 14 days, anti-CD3 and anti-CD28 coated beads for 14 days, 1 \u03BCg/mL Interleukin-4\
    \ antibody for 36 hours, 30 ng/mL Interleukin-12 subunit alpha for 36 hours\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 {ENCFF528SLH|/files/ENCFF528SLH/}\
    \ processed by DNase-seq ENCODE4 v3.0.0 GRCh38 pipeline ({ENCPL848KLD|/pipelines/ENCPL848KLD/})\
    \ for GRCh38 assembly  have a SPOT1 score of 0.39. 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: ENCSR636DIR
    status: released
    assay_term_name: DNase-seq
    simple_biosample_summary: "male adult (35 years) treated with anti-CD3 and anti-CD28\
      \ coated beads for 24 hours, 30 ng/mL Interleukin-12 subunit beta for 36 hours,\
      \ 10 ng/mL Interleukin-2 for 14 days, anti-CD3 and anti-CD28 coated beads for\
      \ 14 days, 1 \u03BCg/mL Interleukin-4 antibody for 36 hours, 30 ng/mL Interleukin-12\
      \ subunit alpha for 36 hours"
    biosample_summary: "Homo sapiens activated T-helper 1 cell male adult (35 years)\
      \ treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 30 ng/mL Interleukin-12\
      \ subunit beta for 36 hours, 10 ng/mL Interleukin-2 for 14 days, anti-CD3 and\
      \ anti-CD28 coated beads for 14 days, 1 \u03BCg/mL Interleukin-4 antibody for\
      \ 36 hours, 30 ng/mL Interleukin-12 subunit alpha for 36 hours"
    replication_type: unreplicated
    biosample_ontology: /biosample-types/primary_cell_NTR_0000633/
    perturbed: false
    doi: 10.17989/ENCSR636DIR
    date_created: '2021-09-29T23:48:43.498537+00:00'
    date_released: '2021-11-04'
    submitter_comment: ''
