جستجوی استاد راهنمای دانشگاهی

Prof. Dr. Christian von Mering is a Professor in the Department of Molecular Life Sciences at the University of Zurich, where he leads an active research group focusing on bioinformatics, systems biology, and microbial ecology. His laboratory maintains strong collaborations across multiple institutions and has established several widely used bioinformatics resources including the STRING database, eggNOG, and PaxDb. His research spans computational biology with a particular emphasis on protein-protein interaction networks, microbial community analysis, and genomic data integration. The von Mering group employs advanced computational methods to analyze large-scale biological datasets, with significant contributions to understanding microbial ecosystems, protein networks, and genomic evolution. Their work bridges theoretical computational approaches with experimental validation. The research output from von Mering's laboratory demonstrates consistent productivity across multiple domains, with recent publications showing particular strength in microbial ecology, protein interaction networks, and genomic resource development. The group's work on the STRING database represents one of their most significant and widely adopted contributions to the field of systems biology. As a research leader, von Mering supervises multiple postdoctoral fellows, PhD students, and research associates. His group includes senior researchers like Dr. Damian Szklarczyk and Dr. Janko Tackmann, along with several postdoctoral fellows and PhD candidates working on diverse projects within the lab's research scope.

• Bioinformatics
• Computational Biology
• Microbial Ecology
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Mark Robinson is a Professor at the Department of Molecular Life Sciences, University of Zurich, and affiliated with the Swiss Institute of Bioinformatics. He leads the Robinson Research Group, focusing on Computational Biology Bioinformatics Single-Cell RNA Sequencing Statistical Genomics His work bridges computational method development with applications in cancer immunology, epigenetics, and developmental genetics. Key research contributions include Development of bioinformatics tools like pubassistant.ch, scDblFinder, and DESpace Advancements in spatial transcriptomics and single-cell data analysis Studies on epigenetic aging and tumor microenvironment dynamics Notable collaborations span institutions in Switzerland, Germany, and international agricultural pest research groups. His recent publications (2023-2025) emphasize Spatial omics data interpretation Interdisciplinary collaboration frameworks Optimized tissue processing methods Computational benchmarks for reproducible research While no specific scientific awards are mentioned in the data, his software tools and methodological papers demonstrate significant impact on open science and bioinformatics communities.

• Computational Biology
• Bioinformatics
• Statistical Genomics
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Aleks Nivina serves as a Junior Group Leader at the University of Zurich's Department of Evolutionary Biology and Environmental Studies, holding a prestigious SNSF Ambizione fellowship since 2023. Her interdisciplinary work bridges molecular biology, genetics, and evolutionary studies to decipher mechanisms of natural product biosynthesis and genetic innovation in bacterial systems. Her academic foundation includes a Pharm.D. in Pharmaceutical Research (2006-2015) and M.Sc. in Systems and Synthetic Biology (2011-2012) from Paris Descartes University, followed by a Ph.D. in Interdisciplinary Biology at the Institut Pasteur (2012-2016). Postdoctoral training at Stanford University (2017-2022) and industry experience at Codexis Inc. (2022-2023) preceded her current independent research position. Nivina's research centers on natural product biosynthesis , particularly modular polyketide synthases and antibiotic pathways, with critical investigations into antibiotic resistance mechanisms . She pioneers studies on enzyme evolution through DNA recombination and gene conversion, employing cutting-edge approaches from single-molecule biophysics to machine learning. Her work reveals how genetic elements like integrons and GRINS systems accelerate evolutionary innovation in biosynthetic pathways. Analysis of her 15 most recent publications shows a cohesive trajectory from fundamental studies of DNA recombination dynamics to engineered applications in polyketide synthase diversification. Her scholarship demonstrates increasing integration of computational methods with experimental validation, particularly in refining recombination sites and modeling evolutionary landscapes in antibiotic-producing systems. Her scientific recognition includes: SNSF Ambizione fellowship (2023-present) Funded by her Ambizione grant, Nivina leads an independent research group establishing novel methodologies for genetic engineering of biosynthetic pathways. While currently building her team and not yet supervising graduate students, her lab focuses on harnessing evolutionary principles to combat antibiotic resistance through rational design of antimicrobial compounds and resistance-bypassing strategies. Based in Zurich's Winterthurerstrasse campus, her laboratory combines structural biology, evolutionary genetics, and synthetic biology approaches to investigate how DNA secondary structures and recombination mechanisms drive functional innovation in natural product biosynthesis, with implications for next-generation antibiotic development.

• Natural product biosynthesis
• modular polyketide synthases
• antibiotic biosynthesis
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Prof. Dr. Mariusz Nowacki is a Full Professor of Genetics and Director of the Institute of Cell Biology at the University of Bern, Switzerland. His research focuses on RNA-mediated epigenetic inheritance in eukaryotic cells, particularly using ciliated protozoa as model organisms to study whole-genome scale developmental DNA rearrangements. His lab investigates how parental cells provide sufficient information to produce fully functional progeny through RNA-mediated comparison of developing zygotic genomes with maternal somatic genomes. Nowacki's research interests center on epigenetic mechanisms of complex genome editing in eukaryotes, with particular focus on RNA-mediated epigenetic inheritance, developmental DNA rearrangements, and chromatin remodeling. His work examines how ciliates execute precise genome rearrangements during sexual reproduction, including elimination of transposons and internal eliminated sequences (IESs), which results in streamlined gene-rich genomes. His lab has made significant contributions to understanding the scan RNA model and RNA-guided genome rearrangement processes. His recent publications reveal trends in RNA biology, epigenetic inheritance, and genome architecture, with particular emphasis on small RNA pathways, chromatin remodeling complexes, and the molecular mechanisms underlying programmed DNA elimination. His work bridges molecular biology, genetics, and evolutionary biology, providing insights into fundamental cellular processes conserved across eukaryotes. ERC Starting Grant (2010) ERC Consolidator Grant (2016) Prof. Nowacki leads a research group comprising multiple PhD students, postdocs, and research staff, focusing on various aspects of ciliate genome biology. His lab is part of the national research excellence network NCCR RNA and Disease. His team investigates both basic mechanisms of genome rearrangement and potential applications of these processes to broader biological questions. Current projects include studying the roles of SMC proteins in DNA elimination, chromatin remodeling in sRNA-guided DNA elimination, and the identification of novel long non-coding RNAs involved in programmed genome rearrangements. The Nowacki Lab operates within the Institute of Cell Biology at the University of Bern, utilizing ciliates such as Paramecium and Oxytricha as model systems. Their research combines molecular, genetic, and biochemical approaches to unravel the complex mechanisms of RNA-mediated epigenetic inheritance and genome rearrangement.

• Epigenetic mechanisms
• RNA-mediated epigenetic inheritance
• Genome editing
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Daniel Bopp is a Senior Research Associate and Groupleader at the Department of Molecular Life Sciences, Faculty of Science, University of Zurich. His laboratory focuses on the molecular evolution of sex determination mechanisms in insects, particularly using the common housefly (Musca domestica) as a model system. The rich diversity of sex determination systems within Musca populations provides a unique opportunity to investigate evolutionary changes in this fundamental developmental process. Dr. Bopp's research interests center on evolutionary biology, molecular genetics, and developmental biology, with particular emphasis on sex determination pathways in insects. His work explores how the differences in sex determination mechanisms came into existence and what evolutionary forces drive rapid turnovers of these mechanisms. The Bopp Lab investigates the molecular basis underlying evolutionary diversification of sex determining pathways, studying how minor changes in otherwise well-conserved pathways can lead to significant evolutionary innovations. Analysis of Dr. Bopp's recent publications reveals a consistent focus on the molecular characterization of sex determination genes in Musca domestica and comparative studies across insect species. His research combines molecular genetics, bioinformatics, and evolutionary analysis to understand the conservation and diversification of sex determination pathways. Key techniques employed in his work include RNA-DNA analysis, microinjections into embryos, CRISPR/CAS9, RNAi, and various '-OMICS' approaches. Dr. Bopp has maintained an active research group at the University of Zurich since the 1990s, progressing from Research Associate to his current position as Senior Research Associate and Groupleader. His laboratory provides training opportunities for master's students interested in genetics and developmental biology, offering hands-on experience with advanced molecular techniques. His educational background includes a PhD (1984-1987) and M.Sc. (1979-1983) in Molecular and Cell Biology from the University of Basel, Switzerland, followed by a visiting research fellowship at Princeton University (1988-1993) in Genetics and Developmental Biology.

• Evolutionary Biology
• Molecular Genetics
• Developmental Biology
• +۴ مورد دیگر

Florent Waltz is an SNSF Ambizione Project Leader hosted at the University of Basel's Biozentrum within the Engel Lab, leading research on mitochondrial architecture in photosynthetic organisms using cutting-edge cryo-electron tomography. His work bridges structural biology, evolutionary studies, and cellular energy metabolism with a focus on green micro-algae like Chlamydomonas reinhardtii. His research program explores three interconnected themes: (1) visualizing mitochondrial architecture and remodeling using cryo-ET to understand energy production under environmental changes; (2) investigating mitochondrial evolution across eukaryotes with emphasis on photosynthetic organisms; and (3) examining molecular-level interactions between mitochondria and chloroplasts. His March 2025 Science publication on the in-cell architecture of the mitochondrial respiratory chain represents a landmark achievement in visualizing molecular machines within native cellular contexts. Waltz co-developed TomoGuide, an online resource for cryo-ET workflows, and contributed to major datasets like the 1,829-tomogram Chlamydomonas resource enabling community-driven visual proteomics. His technical innovations include MemBrain v2 for membrane analysis in cryo-ET data. SNSF Ambizione Fellowship (major Swiss early-career award) Featured on Science magazine cover (March 2025) Key contributor to open science resources for cryo-ET community As a collaborative researcher, Waltz participates in international consortia studying mitochondrial biology, plant systems, and cryo-ET methodology development. His work has established new standards for in situ structural analysis of energy-producing organelles while advancing open science through public data sharing and software tools.

• Mitochondrial Biology
• Cryo-Electron Tomography
• Photosynthetic Organisms
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Prof. Attila Becskei is a Professor at the Biozentrum, University of Basel, Switzerland, where he leads a research group focused on understanding genetic regulatory circuits and cell differentiation mechanisms. His work combines experimental approaches with mathematical modeling to investigate gene networks in yeast and mammalian cells. His educational background includes studies at the University of Szeged, Hungary (1992-1998), followed by postdoctoral work at EMBL, Heidelberg (1998-2002) and MIT, Cambridge (2002-2005). He served as an Assistant Professor at the University of Zurich (2006-2011) before becoming a Professor at the University of Basel in 2011. Prof. Becskei's research focuses on the principles of genetic regulatory circuits, with particular emphasis on feedback mechanisms, epigenetic processes, and RNA turnover regulation. His work explores how these elements control cellular adaptation strategies, decision-making processes, and differentiation. A significant portion of his research investigates stochastic and epigenetic processes in gene expression, particularly how long-range chromosomal interactions determine gene expression patterns. His laboratory has developed innovative methods such as the multiplexed gene control (MGC) technique to measure rapid mRNA turnover rates in yeast. His recent publications demonstrate a consistent focus on RNA dynamics, gene network regulation, and cellular differentiation mechanisms. The articles reveal a progression from fundamental studies of gene networks and bistability toward more specific applications in cancer biology and neuronal differentiation. A recurring theme across his work is the integration of mathematical modeling with experimental validation to understand complex biological systems. 2003 Human Frontiers Fellow 2005 Nobel prize winners conference award Prof. Becskei advises several doctoral students and postdoctoral researchers, including Samuel Mondal, Nicole Schiffelholz, and Dr. Sayanur Rahaman. His research group at the Biozentrum includes both experimental and computational scientists working collaboratively to advance understanding of genetic regulatory networks. The group has secured funding for multiple projects investigating mRNA turnover, cellular memory mechanisms, and stochastic gene expression processes. The Becskei laboratory at the University of Basel's Biozentrum maintains a multidisciplinary research environment where molecular biology techniques are combined with mathematical modeling approaches to investigate genetic regulatory circuits. The lab has made significant contributions to understanding how feedback regulation improves adaptation mechanisms and cellular memory.

• Genetic Regulatory Circuits
• Cell Differentiation
• RNA Turnover
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Prof. Dr. Timm Maier is a Full Professor of Structural Biology at the University of Basel , affiliated with the Biozentrum since 2023. His research focuses on elucidating the architecture and functional principles of multienzymes and regulatory protein complexes involved in metabolic processes. Key Research Areas: Metabolic regulation, protein complex structures, hybrid structural methods (Cryo-EM, X-ray crystallography), and drug development targeting mTOR and lipid metabolism. Technologies: Combines experimental structural biology with computational approaches to study macromolecular dynamics. Research Trends & Articles Recent publications highlight structural studies of mTOR complexes, BAM insertase, and antibiotic targets like BamA. The work bridges fundamental enzyme architecture with therapeutic applications in cancer and infectious diseases. Students & Collaborations His lab advises doctoral candidates such as Max Pokutta and Matthias Zeug , alongside technical and administrative team members including Stephanie Gehlen.

• Structural Biology
• Metabolic Regulation
• Protein Complexes
• +۴ مورد دیگر

Torsten Schwede is a Professor for Structural Bioinformatics at the Biozentrum, University of Basel since 2018, and currently serves as President of the SNSF Research Council since 2025. Previously, he was Vice President for Research at the University of Basel (2018-2024), Director of the SPHN Data Coordination Center (2016-2019), and Scientific Director of sciCORE Center for Scientific Computing (2014-2019). He has been a Group Leader at the SIB Swiss Institute of Bioinformatics since 2002 and served as Associate Professor (2007-2018) and Assistant Professor (2001-2007) at the Biozentrum. Dr. Schwede earned his PhD in protein crystallography from Albert Ludwigs University, Freiburg, Germany (1995-1998), following diploma studies in biochemistry at Albert Ludwigs University (1991-1994) and University of Bayreuth (1988-1991). His early career included positions as a staff scientist at GSK GlaxoSmithKline R&D (2000-2001) and postdoctoral researcher at GWER GlaxoWellcome Experimental Research (1999-2000). His research focuses on computational methods for modeling and simulating three-dimensional protein structures, particularly through homology modeling. His work enables investigation of protein functions at the atomic level, with applications in understanding disease-causing mutations and structure-based drug development. Dr. Schwede is best known for developing SWISS-MODEL, an automated protein homology-modeling server that has become a standard tool in structural bioinformatics. His recent work centers on benchmarking protein structure prediction methods through CAMEO and developing high-throughput pipelines like AlphaPulldown2 for structural modeling. Dr. Schwede's research has been widely recognized, including being selected by ISI Thomson Reuters as having the highest cited Swiss paper during 1999-2009 for his work on SWISS-MODEL. In 2014, his Nucleic Acids Research manuscript on SWISS-MODEL achieved rank 6 in traditional impact measure according to a study by the Swiss National Science Foundation. His work on protein-ligand interactions and computational drug discovery has also received significant attention in the scientific community. President of the SNSF Research Council (2025-present) President of the SNSF Research Council (2025-present) Member of RCSB PDB scientific advisory board (2015-present) Member of CASP organizing committee (2011-present) Chair of ELIXIR board (2015-2016) Conference Chair for ISMB 2019 in Basel At the Biozentrum, Dr. Schwede leads a research group dedicated to advancing computational methods for protein structure prediction and analysis, with a particular focus on making these tools accessible to the broader scientific community through web-based platforms and standardized data formats. His team's work on ModelArchive and CAMEO has established critical infrastructure for the structural biology community.

• Structural Bioinformatics
• Protein Structure Prediction
• Computational Biology
• +۵ مورد دیگر

Dr. Paul Guichard is an Associate Professor at the University of Geneva's Department of Molecular and Cellular Biology. His research focuses on deciphering the structural mechanisms governing centriole assembly through multidisciplinary approaches including cryo-electron tomography, expansion microscopy, and in vitro reconstitution assays. Current research projects: Centriole structure/function, Expansion Microscopy developments, Ciliopathy & Eye diseases, Immune Synapse Architecture, Molecular conoid studies, Plankton ultrastructural diversity The lab's recent work (2020-2024) has revealed key insights into centriole cohesion, microtubule organization, and protein complexes critical for ciliogenesis. Their structural analyses of centriole components across species (Paramecium, Chlamydomonas, Trichonympha) highlight evolutionary conservation. Key techniques: Cryo-ET, U-ExM, in vitro assays, 3D reconstruction Funding: Fondation privée des HUG (Plasmodium conoid studies)

• Structural Cell Biology
• Centriole Architecture
• Expansion Microscopy
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Emmanuel Levy is a Full Professor at the Department of Molecular and Cellular Biology, University of Geneva. His research focuses on the self-organization of proteins, integrating computational and experimental approaches such as structural biology, proteomics, and synthetic biology. Using budding yeast as a model organism, his lab investigates principles of protein assembly, phase separation, and evolutionary constraints. Full Professor University of Geneva Department of Molecular and Cellular Biology Research interests include: Protein Structure and Assembly Synthetic Biology applications Proteomics and Evolutionary Biology Biomolecular Condensates Structural and Computational Biology Recent publications highlight work on: Protein complex alignment Co-translational assembly Evolution of oligomeric states Coiled coil analysis Stickiness and condensate recruitment Phase separation dynamics Laboratory name: Explorers and Architects of Cells' Proteome

• Protein Structure
• Synthetic Biology
• Proteomics
• +۳ مورد دیگر

Sophie G Martin is a Full Professor in the Department of Molecular and Cellular Biology at the University of Geneva , Switzerland. Her research focuses on molecular mechanisms of cell polarization , actin and sterol dynamics , and cell-cell fusion processes using Schizosaccharomyces pombe as a model organism. Current research explores TORC1 reactivation during mating, Cdc42 threshold dynamics in fusion decisions, and cross-species actin network imaging Leaders the Martin Lab at Geneva, mentoring 14+ students/postdocs including Laura Merlini and Melvin Bérard Research Highlights : Through quantitative live-cell imaging, electron microscopy, and proteomics, her lab investigates: Coordination of cytoskeletal organization with membrane dynamics Phosphoproteomic signaling networks in sexual reproduction Actin focus architecture in fusion processes Evolutionary conservation of aster formation mechanisms Recent Publications (2023-2024) reveal key findings about: Cdc42 concentration thresholds in mating TORC1's dual role in starvation and reproduction Arp2/3-dependent endosome shaping Novel microscopy methodologies (Cryo-ExM, IntAct-U-ExM) Mechanistic parallels between actin and microtubule organization Collaborations span structural biology, microscopy, and yeast genetics communities, including Marko Kaksonen, Carolyn Bertozzi, and Tim Clausen's group.

• Cell polarization
• Cytoskeleton organization
• Cell-cell fusion
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Dr. Marco La Fortezza is a Lecturer at the Department of Environmental Systems Science at ETH Zürich. His research investigates the effects of selective pressures on social traits in developmental evolution, primarily using Myxococcus xanthus as a model organism. Techniques range from microscopy to sequencing to analyze phenotypic and molecular mechanisms. Education: PhD in Developmental and Cellular Biology, LMU München (2011-2017) MSc in Genetics and Molecular Biology, Sapienza University of Rome (2009-2011) BSc in Biology, Sapienza University of Rome (2006-2009) Research Focus: Evolutionary developmental biology in microbial systems, including social selection in bacterial multicellularity, phenotypic plasticity, and latent evolutionary adaptations. Current work examines how ecological factors influence developmental evolution without direct selection pressure. Publication Trends: Recent work (2021-present) focuses on evolutionary mechanisms in bacterial multicellular development, while earlier publications (2015-2018) emphasize Drosophila genetics, epigenetics, and stress response pathways. Professional Experience: Postdoctoral fellow at ETH Zürich (2017-present) Short-term postdoc at LMU München (2017)

• Evolutionary Biology
• Microbiology
• Developmental Genetics
• +۲ مورد دیگر