Research tools

This non-exhaustive list of freely available research tools can assist you in your research projects and help you make better-informed decisions

• ANNOVAR 
  ANNOVAR is a software tool to utilize up-to-date information to functionally annotate genetic variants detected from diverse genomes.

• Bioconductor   
  Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data.

• cBioPortal for Cancer Genomics   
  The cBioPortal for Cancer Genomics provides visualization, analysis and download of large-scale cancer genomics data sets.

• COSMIC
  The Catalogue of somatic mutations in cancer (COSMIC) is designed to store and display somatic mutation information and related details and contains information relating to human cancers.

• DAVID
  The Database for Annotation, Visualization and Integrated Discovery (DAVID) provides a comprehensive set of functional annotation tools for investigators to understand biological meaning behind large lists of genes.

• DGIdb
  The Drug-Gene Interaction Database (DGIdb) is a tool to help search for drug-gene interactions by gene name and find genes in druggable gene categories.

• Gene Set Enrichment Analysis (GSEA) 
  GSEA is a computational method that determines whether an a priori defined set of genes shows statistically significant, concordant differences between two biological states (e.g., phenotypes).

• Molecular Signatures Database (MSigDB)
  MSigDB is a collection of annotated gene sets for use with GSEA software.

• Oncomine
  The Oncomine Research Edition provides more than 700 datasets and over 85,000 samples to help improve the ease and efficiency of discovery.

• Oncotator
  Oncotator is a web application for annotating human genomic point mutations and indels with data relevant to cancer researchers.