Cancer Informatics

Shared Resources

 

Purpose
The Cancer Informatics Core (CIC) works with investigators to transform Data into Information and Information into Knowledge. This includes small/short-term projects to long-term collaborations. CIC offers computational approaches to retrieve, integrate, analyze and visualize high-dimensional molecular data from all fields ranging from genomics to drug activity. For in-house generated data, the CIC works closely with the Molecular Genomics Core (MGC), Proteomics Core (PC), Flow Cytometry Core (FCC) and other Cores, ensuring an easy transition between the cores. In addition, the CIC builds tools and databases, integrating source systems with manually curated data. 

Services
Bioinformatics Data analysis

  • Analyzing all types of molecular data, internal and external
  • Download, QC, Annotate & analyze data from public sources including TCGA, GEO, ArrayExpress, NCI-60, CCLE, dbGAP, SRA
  • Analyzing and visualizing Illumina Methylation BeadChips
  • Selecting sequences/probes & analyzing NanoString data
  • Managing and analysis large GWAS studies
  • Massively Parallel DNA Sequencing: In-house pipeline for RNA-seq, ChIP-Seq DNA sequencing data
  • Mass Spectrometry-based Proteomics and Metabolomics: Analysis pipelines for quantification, identification and normalization

Informatics Solutions

  • Data models of scientific data and design of computational architectures
  • Integrated Image PACS with clinical data
  • Mobile technology application development

Molecular Visualization Tools

  • Easy access to sequencing and expression data (mutationid, expressionid)
  • Integration of clinical sequencing data for molecular tumor board

Research

  • Efficient storage models for genomic data
  • Normalization of array data
  • Validation of gene signatures
  • Tools for accessing, visualizing & analyzing large tumor only molecular datasets

Software

  • R/Bioconductor
  • MATLAB
  • BWA/GATK/ANNOVAR
  • GeneGO/MetaCore
  • MSSQL/MySQL/MongoDB

Location
The CIC is located in the Moffitt Research Center (MRC) on the 2nd, Room 263.

Scheduling
The CIC uses a Laboratory Information Management Suite (LIMS) located on the Moffittnet for billing and usage tracking.

Publications
All publications based on work conducted in the Cancer Informatics Core should acknowledge the facility.  A suggested statement is as follows:

This work has been supported in part by the Cancer Informatics Core at the H. Lee Moffitt Cancer Center & Research Institute, a comprehensive cancer center designated by the National Cancer Institute.

If a Core Staff member(s) significantly contributes or participates in a project, investigators are encouraged to consider including the individual(s) in the list of authors.

Contacts
Scientific Director
Steve Eschrich, PhD - steven.eschrich@moffitt.org
Office: 813-745-1303

Core Facility Manager  
Yanji Xu, PhD - yanji.xu@moffitt.org
Office: 813-745-6604