Integrated Center for Oncology

Breast Cancer Gene-Expression Miner v4.5
(bc-GenExMiner v4.5)

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Exhaustive prognostic analysis Tutorial

Enter input gene:

  • GENE EXPRESSION DATA Open
  • First, choose your gene expression data. Information about cohorts : microarrays, Affymetrix®, METABRIC, TCGA or SCAN-B (aka GSE81540 = GSE81538 + GSE96058)

    Then fill the textbox with actualised* gene symbol or Affymetrix® probeset ID.

    *: see actualised web databases (e.g.: GeneCards, Ensembl, HGNC, NCBI Gene...)

    @: the probesets followed by "@" are described as references for subtyping ER, PR and HER2 status by means of genomics data. See Kenn et al..

  • DNA microarrays
  • (n = 10 001)
  • (n = 4 904)
  • (n = 1 980)
  • RNA-seq
  • (n = 4 712)
  • (n = 1 034)
  • (n = 3 678)

  • POPULATION 
  • All criteria of population's section from targeted prognostic analysis module will be taken into account.
  • DISCRETISATION Open
  • Choose one of the radio button to select which splitting method you want to explore for prognostic study:
    • "mediane": 2 groups split at 50%,
    • "tertile": 3 groups split at 33%,
    • "quartile": 4 groups split at 25%,
    • "optimal": 2 groups split at the best cut-off (more details)
    • "custom percentile": 2 groups split at the user cut-off.

  • Splitting criterion:


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