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SCGPM Seminar: Paul Billing-Ross, SCGPM
Tue, June 14, 2016, 12:00 PM – 1:00 PM PDT
“Using Sequencing Data on DNAnexus: Features and Workflows”
Paul Billing-Ross, Stanford Center for Genomics and Personalized Medicine
Tue, June 14th
12:00 - 1:00PM
Clark S361 - Lunch provided
Abstract: The recent explosion of genomic technologies gives us the ability to probe the genome with unprecedented depth and dimensionality. However, with these new technologies come new challenges. As experimental and analytical methods become more sophisticated, different tasks are increasingly distributed among individuals of different labs, departments, or institutions. Sharing large datasets between individuals can be a major bottleneck in collaborative projects. Additionally, configuring and using bioinformatics tools can be a cumbersome project requiring technical experts or hours of trial-and-error. The Stanford Sequencing Center helps alleviate these issues by delivering sequencing data on the DNAnexus cloud-based genome informatics platform. This workshop will demonstrate how you can use DNAnexus to achieve your bioinformatics goals. Topics will include sharing and visualizing data, using published apps, running ENCODE pipelines, building applets, assembling workflows, and using DNAnexus console commands. With your SCGPM sequencing data on DNAnexus, you’ll be able to run sophisticated bioinformatic analyses. No coding required!
Bio: Paul is a software developer in the Stanford Center for Genomics and Personalized Medicine. His background is in computational biology and genomics. He broke into computational biology by studying models of molecular evolution under Dr. Sudhir Kumar at Arizona State University and then transitioned to studying mitochondrial genetics as a National Science Foundation Graduate Research Fellow at Cornell University. He joined SCGPM last September and took on the challenge of launching our cloud sequencing pipeline on DNAnexus. He is now working to improve the speed, reliability, and usability of the pipeline and sequencing results. As a member of SCGPM, he is excited to enable and empower researchers to use bioinformatic tools to answer biological questions.
ABOUT THE SCGPM: The Stanford Center for Genomics and Personalized Medicine (SCGPM) seeks to advance genomic technology so that someday both genetic and molecular profiling will become powerful and routine tools for predicting disease risk and monitoring and treating a wide range of pathologies. Towards this mission, the SCGPM serves to centralize and develop collaborative intellectual and technological resources that promote genomic research and analysis, predict drug response, educate physicians, and examine the ethics of personalized medicine. This includes large basic science projects such as ENCODE that decipher the human genome as well as clinical research projects such as the sequencing of cancer genomes and individuals with inherited diseases. Through these efforts, the Center aims to bring genomics to the clinic.
For more information about the SCGPM, go to http://scgpm.stanford.edu.
The SCGPM supports the Genetics Bioinformatics Service Center, a SoM core facility for genomics research that provides a secure on-premise computing infrastructure, Google Cloud gateway, and bioinformatics consulting. The facilities are available to all faculty members at Stanford University.
More @ http://gbsc.stanford.edu. Send inquiries to firstname.lastname@example.org .