Nvidia Webinar on Genomics

    Agenda (draft) :

• Introduction to NVidia case studies in Genomics (KSL/Craig Rhodes)                                    10min
• Basecalling on GPUs with AI                                                                                                              30 min
• Clara Parabricks Pipelines Overview and Applications                                                                30 min
• KAUST/NVidia POC in Clara Parabricks                                                                                         30 min
• Deep Learning and Accelerated Computing for Single-Cell Genomic Data                             30 min
• Tertiary analysis / GWAS studies using NVIDIA  (Hatem Ltaief/KAUST)                              30 min
• Panel discussion inclusing speaker and invited KAUST Faculty                                                 20 min

  Useful links: 

• CLARA PARABRICKS Pipelines

• White paper   

• Recent publications either using or referencing Parabricks

  • Friedman S, Gauthier L, Farjoun Y, Banks E. Lean and deep models for more accurate filtering of SNP and INDEL variant calls. Bioinformatics. 
  • Franke KR, Crowgey EL. Accelerating next generation sequencing data analysis: an evaluation of optimized best practices for Genome Analysis Toolkit algorithms. Genomics Inform. 
  • Ogasawara O, Kodama Y, Mashima J, Kosuge T, Fujisawa T. DDBJ Database updates and computational infrastructure enhancement. Nucleic Acids Res. 
  • Shinozaki-Ushiku A, Ishikawa S, Komura D, Seto Y, Aburatani H, Ushiku T. The first case of gastric carcinoma with NTRK rearrangement: identification of a novel ATP1B-NTRK1 fusion [published online ahead of print, 2020 Mar 18]. Gastric Cancer.

   TBD

(In fall semester)

Third ANSYS-KAUST Workshop

Fifth KAUST-NVIDIA Workshop on Accelerating Scientific Applications Using GPUs