High Throughput Bioinformatics: Theory to/from Practice

My background Link to heading

International co-authors in bioinformatics Link to heading

  • Theory
    • KIT, Venice, Halifax
  • Bioinformatics
    • Venice, Lille, Helsinki, Maryland
  • Practice
    • Birmingham, Utrecht (de-facto PhD “supervisor”)

Background Link to heading

  • DNA sequencing is cheap → data grows exponentially
    • High pace of new, fast, heuristic tools
  • Theoretical CS does not match modern hardware
    • Need for new theory and engineered algorithms
  • Modern CPUs: SIMD instructions; caches

Proposal: From theory to practice Link to heading

Sanders’ Algorithm Engineering group @ KIT Link to heading

  • Strong alumni
    • Simon Gog, Florian Kurpicz
  • Strong theoreticians
    • Stefan Walzer
  • Strong in data structures
    • Stefan Hermann
  • Strong engineers
    • Marvin Williams

KIT Focus areas:

  • Mathematics in Sciences, Engineering, and Economics
  • Health Technologies

Why I need YIG Prep Pro Link to heading

  • How to sell “doing too much”?
  • How to sell “engineering simple algorithms”?
  • Travel budget for networking
    • Presenting at ~7 conferences this year

Outlook

  • Highly interdisciplinary group
    • PhD/postdoc engineer
    • large network
    • close contact with users