Miscellanea
Information for Prospective Ph.D. and Masters Students
In order to become a student in the lab it is necessary to be accepted into one of the various Ph.D. and Master's programs.
For your convenience, find below a list of the most suitable programs (this list is not exhaustive):
Master of Science ETH UZH in Computational Biology and Bioinformatics CBB
UZH Master of Science degree programs
Ph.D. Program in Biomolecular Structure and Mechanism
Ph.D. Program in Computational Science
Ph.D. Program in Molecular Life Sciences
Funding
Over the years, we have been fortunate to receive funding from a variety of public and private agencies. They include:
- The Swiss National Science Foundation (SNF)
- The Krebsliga Schweiz
- The Forschungskredit of the University of Zurich
- The Systems X Foundation
- The Platform for Advanced Scientific Computing (PASC)
- The Holcim Stiftung Wissen
We gratefully acknowledge their support, which is essential to the success of the lab.
Brain Diseases Award
The Fonds BRAIN DISEASES, formerly provided for and organized by the Empiris Foundation, has been now been integrated into the UZH foundation, and you can see all relevant information for current awards by following this link (currently only in German).
The list of previous winners is as follows:
- Mathias Heikenwälder (UZH) for Chronic lymphocytic inflammation specifies the organ tropism of prions
- Marlen Knobloch (UZH) for Intracellular Aβ and cognitive deficits precede β-amyloid deposition in transgenic arcAβ mice and Eline Vrieseling (University of Basel) for Target-induced transcriptional control of dendritic patterning and connectivity in motor neurons by the ETS gene Pea3
- Anat Frydman-Marom (University of Tel Aviv) for Cognitive performance recovery of Alzheimer's disease model mice by modulating early soluble amyloid assemblies and Carsten Sachse (University of Jena) for Paired β-sheet structure of an Aβ(1-40) amyloid fibril revealed by electron microscopy
- Susanne Schneider (University of Lübeck) for Mutations in the THAP1 (DYT6) gene- a cause of generalized dystonia with prominent spasmodic dysphonia
- Verena Finder (ETH Zurich) for The recombinant amyloid-beta peptide Abeta1-42 aggregates faster and is more neurotoxic than synthetic Abeta1-42 and Andreas Vitalis (Washington University in St. Louis) for Quantitative characterization of intrinsic disorder in polyglutamine: insights from analysis based on polymer theories
- Stéphanie Vuillermot (ETH Zurich) for Analysis of neurodevelopmental impact of prenatal immune activation in mice reveals primary defects in dopaminergic development relevant to schizophrenia
- Amelie Ebke (LMU München) for Novel γ-secretase enzyme modulators directly target presenilin protein
- Sandra Giovanoli (ETH Zurich) for Stress in puberty unmasks latent neuropathological consequences of prenatal immune activation in mice
- Marc Aurel Busche (TU München) for Clusters of hyperactive neurons near amyloid plaques in a mouse model of Alzheimer's disease and Katharina Gapp (UZH) for Implication of sperm RNAs in transgenerational inheritance of the effects of early trauma in mice
- Anne Maass (University of Magdeburg) for Vascular hippocampal plasticity after aerobic exercise in older adults
- Lisa Traunmüller (University of Basel) for Control of neuronal synapse specification by a highly dedicated alternative splicing program
- Tobias Wauer (University of Cambridge) for Structure of the human Parkin ligase domain in an autoinhibited state
- Gioele La Manno (Karolinska Institute, Stockholm) for RNA velocity in single cells
- Sara Bottes (UZH) for Live imaging of neurogenesis in the adult mouse hippocampus
Links
Please find below a collection of links that point you to tools, resources, colleagues, etc, which are useful to us in our daily work.
Molecular Simulation and Analysis Software
- Official Website of CHARMM
- Official Website of CAMPARI
- Official Website of Wordom
- CHARMM Forum
- CHARMM GUI
- Analysis of Protein Structure and Function: A Beginner's Guide to CHARMM
- Official Website of GROMACS
- Official Website of AMBER
Molecular Visualization Software
Databases
- UniProt Sequence Database
- RCSB Protein Data Bank
- Uppsala Electron Density Server
- ZINC Small Molecule Database
- Database of Protein Disorder (DisProt)
Literature Search
Other Research Groups
- Chemistry Department at Harvard
- Research Group of Charlie Brooks at the University of Michigan
- Research Group of Alex MacKerell at University of Maryland
- Research Group of Themis Lazaridis at CUNY
- Research Group of Andy McCammon at UCSD
- Research Group of Lennart Nilsson at Karolinska
- Research Group of Benoit Roux at University of Chicago
- Research Group of Rohit Pappu at Washington University
- CBS Section Headed by Bernie Brooks at NIH
- Theoretical Biophysics Department at MPIBP (Gerhard Hummer)
Algorithms
Generally speaking, our algorithms and tools are contained and explained in papers and in the documentation of the software packages hosting their implementation. For community detection algorithms, the following website provides additional information: