The Data Science Garage

Using Data Science to Fight Cancer

The Lab

Our lab works on the intersection of computer engineering, statistical analysis and biology science. Based out of the OHSU Knight Cancer Institute we study systems biology, cancer, computational systems and integrative analysis. We work on projects funded by the Nation Cancer Institute (NCI) and the National Human Genome Research Institute (NHGRI).

If you are interested, we are looking for:

  • PhD Students
  • Post Docs
  • Engineering Staff
  • Scientific Research Staff

Projects

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Grip

GRaph Integration Platform

BMEG

BioMedical Evidence Graph

DREAM-SMC

Somatic Mutation Calling

DREAM-SMC-RNA

RNA Fusion Calling and Isoform Quantification

Funnel

Funnel Task Execution Server

MC3

Multi-Center Mutation Calling in Multiple Cancers

Recent Publications

. A Community Challenge for Inferring Genetic Predictors of Gene Essentialities through Analysis of a Functional Screen of Cancer Cell Lines.. 2017.

. TumorMap: Exploring the Molecular Similarities of Cancer Samples in an Interactive Portal.. 2017.

. Combining tumor genome simulation with crowdsourcing to benchmark somatic single-nucleotide-variant detection.. 2015.

. Global optimization of somatic variant identification in cancer genomes with a global community challenge.. 2014.

. Enabling transparent and collaborative computational analysis of 12 tumor types within The Cancer Genome Atlas.. 2013.

. The Cancer Genome Atlas Pan-Cancer analysis project.. 2013.

. The UCSC Cancer Genomics Browser: update 2013.. 2013.

. TOPSAN: a dynamic web database for structural genomics.. 2011.