This is the homepage of Frits Dannenberg.  Contact me at fdannenberg@live.nl.

My publications (with .pdf where permitted).

My google scholar profile.

Students at UUAS should click here.

I continue to maintain the multistrand software. If you want to compute reaction rates for a limited set of reactions, using a web interface, I am running a beta test: use the following server.

Short bio:

I create models and methods that describe the behavior of nucleic acids. I hold a BSc and MSc in Applied Mathematics from the Delft University of Technology in the Netherlands. In 2011 I became a Microsoft PhD Fellow and studied under Prof. Marta Kwiatkowska and Prof. Andrew J. Turberfield in Oxford, UK. The Prins Bernhard Cultuurfonds provided additional support while finishing my PhD. Before joining Prof. Erik Winfee’s group at the California Institute of Technology in Pasadena, California, USA, I worked with Dr. Andrew Phillips at Microsoft Research in Cambridge, UK. In the fall of 2018 I started lecturing computer science at the Utrecht University of Applied Sciences.


12/09/2018: The VEMDP workshop (workshop website) proceeded as planned, approximately 30 were in attendance. Here is a group photo with some of the attendees.

8/05/2018: Many thanks to everyone who submitted an abstract for the VEMDP workshop, which will take place in Oxford, UK, on July 19th 2018 (CfP.pdf). See you there!

19/07/2017: Mrinank Sharma of U of Cambridge started his undergraduate internship last month. He will be using Multistrand, which is now hosted on github. Also, our paper on new kinetic models for nucleic acid interactions was accepted at the DNA23 conference. It is titled: Inferring Parameters for an Elementary Step Model of DNA Structure Kinetics with Locally Context-Dependent Arrhenius Rates and was developed in collaboration with Anne Condon and Nasim Zolaktaf at U of British Columbia.

7/08/2016: Our theory paper on the self-assembly of DNA origami is one of the most downloaded articles in the Biological Molecules and Networks section of The Journal of Chemical Physics so far in 2016, according to the AIP.

18/03/2016: Download my thesis here. In Chapter 7,  I show that the self-assembly of DNA origami depends on the reversible nature of the bonds that govern the self-interaction of  the backbone. By manipulating the most stable bonds in our origami tile, we alter the distribution of shapes that occur after folding.

Could this help us create better DNA origamis in the future? Let’s hope so.

For a slightly longer (but still popular) description of the polymorphic tile, you could check out the blog post Tom wrote, or this science blog by Oxford. Nature recently ran an editorial about the applications of DNA origami.