Target group: Computer science students, employees at the department
Professional (academic) contact person is Head of Department / Professor Alexander Horsch.
Date: Friday May 24th 2019, 09:00 (sharp)
Place: Lille Aud. B203, Realfagsbygget, Campus Tromsø
Title: Next Generation Computational Infrastructures for Accessible, Standardized, Scalable Bioinformatics
Lecturer: Associate Professor Konstantinos Krampis, Associate Professor, Biological Sciences Hunter College, City University of New York (CUNY); Director of Bioinformatics Center for Translational and Basic Research (CTBR-CUNY); and Adjunct Faculty, Institute of Computational Biomedicine Weill Cornell Medical College
Next Generation Sequencing (NGS) technology has become fully integrated in every aspect of medical and biological research, and we can now affordably capture all genomic and transcriptomic features of cellular function with unprecedented scale and detail. In this seminar, I will discuss what I believe are key elements for the next generation of bioinformatics infrastructures towards achieving scalability and accessibility, and how to streamline genomic data analysis similarly to the way pre-packaged laboratory reagent kits have done for biological sample processing. The ideas will be presented within the context of genomic data science, which is defined by large-scale sequencing projects involving integrative analysis of differential gene expression, mapping and annotation of genomic variation. The presentation will also focus on metagenomics analysis, which allows us to study the impact that thousands of microbial species have on the metabolic activities, disease resistance and even mental health of a host organism, and further for environmental and ecological niches. I will present examples of software applications we have developed by leveraging the latest web and mobile computing technologies, enabling researchers to easily interpret complex genomic and metagenomic datasets through rapid analysis and intuitive visualizations. I will also demonstrate our standardized and computationally scalable tools, using the Galaxy platform that runs within cloud computing (Docker) containers, allowing for seamless bioinformatics analysis pipeline composition, execution, and data management. With the cost of NGS at a point where it has become affordable for every independent research lab, it is key that we remove all bioinformatics data analysis barriers, in order to democratize genomic sequencing applications in all aspects of biological and environmental research.