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Jeremy Goecks

    • Associate Professor of Biomedical Engineering School of Medicine
    • Associate Professor of Computational Biology Program School of Medicine
    • Program in Molecular and Cellular Biosciences School of Medicine

Dr. Jeremy Goecks is an Associate Professor of Biomedical Engineering and Computational Biology at Oregon Health and Science University (OHSU). He directs informatics for OHSU’s precision oncology program and has leadership positions in several national/international computational biology infrastructure projects funded by NIH and NSF. He is a lead investigator for the Galaxy Project (http://galaxyproject.org), a Web-based computational workbench used by thousands of scientists throughout the world.

Areas of interest

  • Computational biology, Machine Learning, Precision Oncology, Cancer Systems Biology

Publications

  • "Biocompute objects - A step towards evaluation and validation of biomedical scientific computations" PDA Journal of Pharmaceutical Science and Technology March 1 2017
  • "Charitable technologies"  December 1 2008
  • "A Quick Guide for Building a Successful Bioinformatics Community" PLoS Computational Biology January 1 2015
  • "The Bioinformatics Open Source Conference (BOSC) 2013" Bioinformatics January 15 2015
  • "NGS analyses by visualization with Trackster" Biotechnology November 1 2012
  • "Integrative Approach Reveals Composition of Endoparasitoid Wasp Venoms" PLoS One May 23 2013
  • "Challenges in supporting end-user privacy and security management with social navigation"  November 10 2009
  • "Open pipelines for integrated tumor genome profiles reveal differences between pancreatic cancer tumors and cell lines" Cancer Medicine March 1 2015
  • "Parasitoid wasp venom SERCA regulates Drosophila calcium levels and inhibits cellular immunity" Proceedings of the National Academy of Sciences of the United States of America June 4 2013
  • "Lessons learned from Galaxy, a web-based platform for high-throughput genomic analyses"  December 1 2012
  • "Impact of germline and somatic missense variations on drug binding sites" Pharmacogenomics Journal March 1 2017
  • "Dietary and flight energetic adaptations in a salivary gland transcriptome of an insectivorous bat" PLoS One January 14 2014
  • "Dissemination of scientific software with Galaxy ToolShed" Genome Biology February 20 2014
  • "Augmenting shared personal calendars"  December 1 2002
  • "Leveraging social networks for information sharing"  January 1 2004
  • "Galaxy" Genome Biology August 25 2010
  • "Turning pipe dreams into reality" Genome Biology August 30 2012
  • "Web-based visual analysis for high-throughput genomics" BMC Genomics June 13 2013
  • "Learning users' interests by unobtrusively observing their normal behavior"  January 1 2000
  • "NuggetMine"  January 1 2002
  • "The Galaxy platform for accessible, reproducible and collaborative biomedical analyses" Nucleic Acids Research July 8 2016
  • "Supporting privacy management via community experience and expertise"  December 1 2005
  • "The Galaxy Track Browser"  December 28 2011
  • "Practical Computational Reproducibility in the Life Sciences" Cell Systems June 27 2018
  • "The Galaxy platform for accessible, reproducible and collaborative biomedical analyses" Nucleic Acids Research July 2 2018
  • "Biology needs evolutionary software tools" Molecular Biology and Evolution June 1 2018
  • "Next Generation Indexing for Genomic Intervals" IEEE Transactions on Knowledge and Data Engineering September 18 2018
  • "Federated Galaxy"  September 7 2018
  • "Enabling precision medicine via standard communication of HTS provenance, analysis, and results" PLoS Biology December 1 2018
  • "High-dimensional multiplexed immunohistochemical characterization of immune contexture in human cancers"  January 1 2019

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