Markus Dittrich’s Homepage

About me

Markus’ picture

Hello and welcome to my webpage. Currently, I am a post-doctoral researcher at the Center For Quantitative Biological Simulation at the Pittsburgh Supercomputing Center and Carnegie Mellon University.

Contact Information:

Markus Dittrich, Ph.D
Center for Quantitative Biological Simulation
Pittsburgh Supercomputing Center
Carnegie Melon University
300 South Craig Street, Rm 401
Pittsburgh, PA, 15213
 phone: (412) 268-1688
fax : (412) 268-8200
email: dittrich(at)psc.edu

News!

Good news! I have recently been awarded a Ruth L. Kirschstein National Research Service Award (NRSA) and will be funded for two years (2008-2010).

CV of Markus Dittrich

* CV of Markus Dittrich

Education and Work History

* Postdoctoral Researcher, Center for Quantitative Biological Simulation, PSC, 2006 - present
* Postdoctoral Researcher, Theoretical and Computational Biophysics Group, UIUC, 2005-2006
* Ph.D. in Physics, University of Illinois at Urbana-Champaign, 2005
* Diploma in Physics, University of Regensburg, Germany, 2000

Computing

For computing related items please check out my computing page. Once in the while, I also post things revolving around computing to my blog.

General Stuff

As if spending most of my day in front of several computer screens wasn’t enough, I also spend a fair amount of my (little) spare time "computing around". Currently, I am a developer for Gentoo Linux mostly involved with porting and maintaining scientific applications. I also do a fair amount of programming, mostly in Haskell, C++, C, lua, ruby, bash, and python. To keep somewhat balanced I maintain a strict running schedule of 5-6 miles a day and I enjoy spending time with my wife Susan. To see a few pictures of our most recent trip to the Southern US, please click here.

Talks

* Insights into the mechanism of molecular motors,
Seminar, J. Stiles Laboratory, 2006, Pittsburgh Supercomputing Center, Pittsburgh, PA.

* Quantum mechanical/molecular mechanical simulations of biomolecular systems,
Seminar, 2006, Sandia National Laboratory, Albuquerque, NM.

* Quantum mechanical/molecular mechanical simulations of biomolecular systems,
Seminar, A. Sali Laboratory, 2005, UCSF, San Francisco, CA.

* Quantum mechanical/molecular mechanical simulations of biomolecular systems,
Seminar, David Baker Laboratory, 2005, Univ. of Washington, Seattle, WA.

* When light falls in LOV: A computational study of a plant photoreceptor,
Biophysics and Computational Biology Summer Symposium,
Illinois Biophysics Society, 2005, UIUC, Urbana, IL.

* Quantum mechanical/molecular mechanical simulations of biomolecular systems,
International Workshop on Classical and Quantum Dynamical Simulations
in Chemical and Biological Physics, 2005, MPIPKS, Dresden, Germany.

* Computational study of the chemomechanical coupling and ATP hydrolysis in F1-ATPase,
BPS Annual Meeting, 2005, Long Beach, CA.

* Insights into the molecular mechanism of ATP synthase, Gordon Research Conference on
Molecular and Cellular Bioenergetics, 2004, Proctor Academy, Andover, NH

General Articles

* Protein Motors Incorporated provides a nice and non-technical description of ATP synthase
and our work on ATP hydrolysis in F1 performed on the Jonas cluster at the PSC.

Poster Presentations

* Quantitative analysis of single calcium channel openings and evoked transmitter release from active zones
Neuroscience Meeting, 2008, Washington, DC.

* Experimental and theoretical analysis of calcium channel density and opening probability in active zones,
Neuroscience Meeting, 2007, San Diego, CA.

* Computational Study of ATP Hydrolysis and Force Generation in PcrA Helicase,
Biophysical Society Annual Meeting, 2006, Salt Lake City, UT.

* QM/MM study of ATP hydrolysis in F1-ATPase,
Biophysical Society Annual Meeting, 2004, Baltimore, MD.

* ATP hydrolysis in F1-ATPase: A combined ab initio QM/MM study,
Biophysical Society Annual Meeting, 2003, San Antonio, TX.

Publications

* Rapid Creation, Monte Carlo Simulation, and Visualisation of Realistic 3D Cell Models.
J. Czech, M. Dittrich, and J.R. Stiles.
Methods in Molecular Biology, Systems Biology, 2009, ed. Maly, Ivan V. Humana Press, Clifton, NJ, 237-287.

* Fast Monte Carlo Simulation Methods for Biological Reaction-Diffusion Systems in Solution and on Surfaces.
R. Kerr, T.M. Bartol, B. Kaminsky, M. Dittrich, J.C.J. Chang, S. Baden, T.J. Sejnowski, and J.R. Stiles.
SIAM J. Sci. Comput., 2008, 30:3126-3149.

* Dynamic switching mechanisms in LOV1 and LOV2 domains of plant phototropins.
Peter L. Freddolino, Markus Dittrich, and Klaus Schulten.
Biophysical Journal, 2006, 91:3630-3639.

* PcrA helicase, a prototype ATP-driven molecular motor.
Markus Dittrich and Klaus Schulten.
Structure, 2006, 14:1345-1353.

* PcrA helicase, a molecular motor studied from the electronic to the functional level.
Markus Dittrich, Jin Yu, and Klaus Schulten.
Topics in current chemistry, 2006, 268:319-347.

* Zooming in on ATP hydrolysis in F1.
Markus Dittrich and Klaus Schulten.
Journal of Bioenergetics and Biomembranes, 2005. 37:441.

* When light falls in LOV: A QM/MM study of photoexcitation in Phot-LOV1 of C. Reinhardtii.
Markus Dittrich, Peter Freddolino, and Klaus Schulten.
Journ. Phys. Chem. B, 2005, 109:13006-13013.

* ATP hydrolysis in the &betaTP and &betaDP catalytic sites of F1-ATPase.
Markus Dittrich, Shigehiko Hayashi, and Klaus Schulten.
Biophysical Journal, 2004, 87:2954-2967.

* On the mechanism of ATP hydrolysis in F1-ATPase.
Markus Dittrich, Shigehiko Hayashi, and Klaus Schulten.
Biophysical Journal, 2003, 85:2253-2266.

* Quasicontinuum representations of atomic-scale mechanics: From proteins to dislocations.
Rob Phillips, Markus Dittrich, and Klaus Schulten.
Annual Review of Materials Research, 2002, 32:219-233.
This page was created in 2006.
This page was last modified on Sept 5, 2009.
My e-mail address is dittrich(at)psc(dot)edu.


I am nerdier than 96% of all people. Are you a nerd? Click here to take the Nerd Test, get geeky images and jokes, and write on the nerd forum!

Valid HTML 4.01 Transitional