To ensure that students acquire work experiences in different settings and develop complementary skills, they will be encouraged to participate in at least one 3 to 4 month summer research internship, typically in the end of their third year of graduate studies. Arrangements will be made to host them in major industrial/government research labs (see list below). These labs offer rich environments for the students to participate in team-oriented projects involving experimentalists, engineers, and computer scientists working on cutting-edge research in biocomputing, biotechnology, and biomedicine.
In the United States:
- Agilent Labs, Palo Alto, CA: visualization and data mining software for biological analysis and pattern recognition, molecular biology instrumentation, drug target identification, gene expression and proteomics; focused on marrying expertise in computer science with biology
- IBM, Yorktown Heights, NY: computing and biological applications in IBM's Blue Gene project. The expertise of our students in scientific computing, computer science, and the natural sciences are already recognized at IBM
- Celera Genomics, Rockville, MD: bioinformatics and genome analysis
- Merck Research Laboratories, Rahway, NJ: molecular modeling, rational drug design applications, drug database analysis, and visualization of chemical databases
- National Center for Supercomputing Applications (NCSA), University of Illinois at Urbana/Champaign, IL: high-speed computing in biology, encompassing molecular modeling and simulation and bioinformatics applications
- Pittsburgh Supercomputing Center (PSC), Carnegie Mellon University, University of Pittsburgh: advanced computer technology, parallel and distributed computing, and biomedical computing resources and modeling
- San Diego Supercomputer Center (SDSC), San Diego, CA: high-speed computing, including parallel computing and computer graphics, biological databases, and simulation analysis. SDSC has special emphasis on development of biological tools and biological applications, a tradition in training students, and continuing research links with NYU scientists
- 3D Pharmaceuticals (affiliate of Johnson and Johnson), Yardley, PA: molecular informatics and computational drug design
- Novasite Pharmaceuticals, San Diego, CA: bioinformatic analysis, chemical libraries, and drug discovery and optimization
To offer COB students experience in different settings, as well as encourage collaborations and interactions with scientists from a variety of cultures, we will offer COB students the opportunity to participate in international summer internships. Since funding for international experience is limited, we will determine on a case-by-case basis those trainees who can best benefit from such an experience based on their thesis research. Students will spend three summer months at one of the participating foreign sites listed below that have ongoing research and educational collaborations with COB faculty. Representative sites are collected below. Other international sites and labs will be added as the program develops.
- Hokkaido University, Japan (Contact: Isao Tanaka) - Research topics include structural genomics, protein crystallography, X-ray crystallography of RNA/ligand complexes. Tanaka collaborates with Gan and Schlick to find and solve novel RNA structures.
- National University of Singapore, Singapore (Contact: Yao Shao Qin) -- Research topics include chemical biology and chemical proteomics. Qin collaborates with NYU chemist Chang to advance chemical proteomics.
- Heidelberg University, Germany (Contact: Andres Jaschke) -- Research topics include catalytic functions of nucleic acids (in vitro selection and evolution), utilization of nucleic acids as catalysts in bioorganic synthesis, diagnostic and therapeutic applications of nucleic acids, generation of combinatorial libraries and development of screening strategies, and chemical and enzymatic synthesis of highly modified nucleic acids. Jaschke collaborates with NYU's Gan and Schlick on RNA design and genomics.
- Freie Universitat Berlin, Germany (Contact: Christof Schutte) -- Research topics include quantum-classical molecular dynamics, effective dynamics, and combination of data analysis and simulation of macromolecules. Schutte's work is related to those of Schlick, Greengard, Tuckerman and Braams of NYU and Mezei of MSSM.
- University of Leicester, UK (Contact: Benedict Leimkuhler) -- Research topics include numerical analysis, especially numerical methods for solving ordinary differential equations, and molecular dynamics. Same as Schutte above. Leimkuhler, Schlick and Gan were also organizers of the Third International Workshop on Methods for Macromolecular Modeling, NYU, October 2000.
- CERMICS-ENPC, Paris (Contact: Claude LeBris) -- Research topics include analyzing mathematical and numerical problems of molecular simulations and mathematical studies and digital simulations for the mechanics of incompressible fluids and magnetohydrodynamics. Le Bris's works are complementary to NYU's Schlick, Tuckerman, Greengard, and Peskin. Le Bris is a frequent vistor of Courant.
- University of Rome, Italy (Contact: Maurizio Gatti) - Research topics include analyzing the mechanisms of cell division across model systems and RNAi-based functional genomics in Drosophila. Gatti has been collaborating with NYU's Piano on functional genomics.
- Warsaw University, Interdisciplinary Center for Mathematical and Computational Modeling (ICM), Poland (Contact: Bogdan Lesyng) - Research topics include biomolecular systems and processes, microscopic, quantum and quantum-classical models, mesoscopic, Poisson-Boltzmann and generalized Born models, macroscopic modelings utilizing the free-energy density approach, models describing kinetics of metabolic pathways, and genomics and proteomics techniques. Work at the Warsaw Center complements research activities of Braams, Gan, Mishra, Piano, Schlick, and Tuckerman at NYU and Mezei at MSSM.
- University of Warwick, UK (Contact: Andrew Stuart) -- Research topics include approximation of stochastic differential equations, differential equations with random initial data, and algorithms and analysis for coupled particle-field problems.
- Institute Biologie Physico-Chimique, Paris (Contact: Richard Lavery) -- DNA modeling and simulations. A consortium of 8 research groups to generate consistent trajectories of all possible tetranucleotide DNA sequences. The consortium collaborates with MSSM's Osman.
- Ecole Polytechnique Federal de Lausanne, Switzerland (Contact: John Maddocks) -- Research involves mathematical description of sequence dependent properties of the DNA based on the simulations deposited in the data base (see R. Lavery above). Maddocks collaborates with MSSM's Osman.
- Weizmann Institute of Science, Israel (Contact: Ada Yonath) -- Research topics include crystallographic studies of RNA/ribosome complexes and peptide bond formation. Yonath collaborates with Jaschke and NYU's Gan and Schlick to develop RNA-based antibiotics.