The Center for Cancer Genomics and Precision Oncology at Wake Forest School of Medicine offers state-of-the-art facilities and extensive resources.

Cell Biology Resource

Resources include:

  • Zeiss Axiophot
  • Nikon Diaphot (inverted) light microscopes (Hoffman Modulation phase contrast, brightfield and fluorescent optics)
  • Phase III Image Pro Plus image analysis system with a Spot RT digital camera attached to the Nikon Diaphot

Pathology is also adding a fully-automated system for tissue microarrays (TMA) to augment the capacity to support biomarker studies.

Cancer Bioinformatics Resources

Bioinformatics shared resources provide sophisticated informatics analysis of data obtained from genomics projects.

Highlights of these services include:

  • Final project report with analysis methods, publication-ready graphics and references.
  • Services for other platforms are also available, including CLIP-seq, DNA methylation sequencing, CRISPR/targeted sequencing and single-cell sequencing.
  • Proteomics (Interactome, expression and PTM) and metabolomics (MSEA, biomarker and pathway) are included.
  • Array-based analyses (gene expression, SNP and copy number, and DNA methylation) are also provided.

Analysis includes:


Level 1

Level 2


  • raw data QC
  • alignment to a reference with mapping statistics
  • gene and transcript-based count quantitation, FPKM/RPKM/TPM-based quantitation
  • differentially expressed gene clustering (heatmap)
  • GSEA or IPA (Pathway)
  • alternative pre-mRNA splicing
  • RNA editing
  • novel transcripts
  • fusion genes/transcript detection
  • visualization (IGV)
  • survival analysis


  • raw data QC
  • alignment to a reference with mapping statistics
  • make duplication and base recalibration
  • somatic mutations if Tumor-Normal pair (SNVs, InDel, CNV)
  • VCF Annotation
  • GSEA or IPA (Pathway)
  • public database search for mutation rate (Cosmic, cBioportal, dbSNP, ExAC, 1000genome)
  • visualization (Waterfalls or Lolliplot)
  • survival analysis


  • raw data QC and clean up
  • alignment to a reference with mapping statistics
  • peaking calling with or without control samples
  • peak annotation
  • pathway analysis
  • motif analysis
  • gene interaction

    network analysis

  • visualization (IGV)