Microsoft Research Connections Blog

The Microsoft Research Connections blog shares stories of collaborations with computer scientists at academic and scientific institutions to advance technical innovations in computing, as well as related events, scholarships, and fellowships.

Bioinformatics Front and Center at MBF Workshop

Bioinformatics Front and Center at MBF Workshop

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On April 19 and 20, the Microsoft Biology Initiative welcomed a small, focused group to the Microsoft Biology Foundation Workshop 2011, held at the Renaissance Computing Institute (RENCI) in Chapel Hill, North Carolina. The workshop was a clinic in the use of the Microsoft Biology Foundation (MBF), an open-source Microsoft .NET library and application-programming interface for bioinformatics research.

Attendees included representatives from BASF Plant Science, SRA International, and the University of North Carolina. The two-day workshop covered the basics of MBF, as well as more advanced topics, such as scalability and the new features in the beta 1 release of MBF version 2.0. (The full release of version 2.0 is planned for this summer.)

Mark Smith, our workshop instructor, did a great job of presenting the material and engaging the audience, which included participants with a variety of programming backgrounds. Attendees loved the code-along sessions, as well as the great introduction to Microsoft .NET Framework programming! Not surprisingly, there was considerable interest in the launch of our MBF coding contest, where one lucky winner will receive an Xbox 360 with Kinect. Workshop samples, including slides and hands-on labs, are available on the Microsoft Biology Training page.

Feedback

Participant input will help us make future MBF workshops more valuable. Here’s a sampling of participants’ feedback:

What did you enjoy most about the workshop?

  • The labs, which provided simple yet powerful examples of the types of programs that can be built

 What would you suggest we change/improve?

  • Add some performance metrics demonstrating why particular structures of classes make sense in different contexts
  • Provide more time to do the labs
  • Include more bioinformatics tools, such as FASTA search and PHYLIP

 How are you using MBF or planning to use MBF?

  • To display (parsed) genomic data, annotate, pipe into sequence analysis programs
  • Planning to extend it to handle PDB files
  • For sequencing analysis

Future Workshops

We will host a two-day MBF Workshop in Cartagena, Colombia, May 16 and 17, 2011. We are also planning a workshop in Brisbane, Australia, July 7 and 8, during the 2011 Winter School in Mathematical and Computational Biology; I will post details once they’ve been finalized. Additional workshops are in the planning stage; we will announce the dates and sites when they are finalized.

In the meantime, we encourage you to get involved in the MBF project. You can join the project and download source code from the Microsoft Biology Foundation CodePlex site. If you discover a problem, please report it under the Issue Tracker tab; if you have a question or suggestion, use the Discussions tab.

 Simon Mercer, Director of Health and Wellbeing Microsoft Research Connections 

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