Seminar Markus Elsner – Wednesday February 16, 2016 (14.00, LIN3, Linnaeus Building)

On Wednesday February 16, 2016, dr. Markus Elsner, senior editor at Nature Biotechnology, will give a presentation entitled “Nature Journals: an insiders perspective” at 14.00 in room LIN3 of the Linnaeus Building (Heyendaalseweg 137, Nijmegen).

Markus Elsner

Markus did his graduate work at EMBL in Heidelberg (Germany) and at the University of Gothenburg (Sweden), where he worked on characterizing protein dynamics in living cells. In his postdoctoral studies at the National Institutes of Health (USA), he investigated the mechanisms of lipid and protein sorting during membrane transport events. He joined Nature Biotechnology in 2008.

Seminar Jan Huisken – Tuesday January 12, 2016 (13.00, 8th floor RIMLS)

On Tuesday January 12, 2016, dr. Jan Huisken from the Max Planck Institute (MPI-CBG) Dresden (Germany) will give a presentation entitled “Reconstructing zebrafish development with smart light sheet microscopy” at 13.00 in the Figdor Lecture theatre on the 8th floor of the RIMLS building.


The overall goal in the Huisken lab is the systematic study of developmental processes in living organisms by noninvasive biomedical imaging techniques such as optical microscopy. Of primary interest is the investigation of organogenesis in zebrafish with special emphasis on the function and morphogenesis of the cardiovascular system and the endoderm. We develop novel quantitative microscopy tools and experimental strategies to understand and describe tissue dynamics on a cellular level. High-speed fluorescence microscopy is the primary tool to capture the dynamics of a heartbeat and the fate of single cells during organogenesis.

Seminar Lucas Pelkman – Tuesday November 17, 2015 (14.00, 8th floor RIMLS)

On Tuesday November 17, 2015, dr. Lucas Pelkman from the Institute of Molecular Life Sciences of the University of Zurich (Switzerland) will give a presentation entitled “Origins of cellular heterogeneity” at 14.00 in the Figdor Lecture theatre on the 8th floor of the RIMLS building.

lucas Pelkman

Cells do not operate in isolation, but create heterogeneous social contexts, to which they adapt their phenotypic behavior. This is true for single-cell organisms as well as for cells from multicellular organisms. The effect of this type of cell-to-cell variability on shaping the phenotypic spectrum of single cells has major consequences for how we study cellular processes and interpret molecular mechanisms and activities in single cells. It also shows that basic social properties of mammalian cells can be studied in in vitro experimental systems using cells grown in culture.

Key publications:

Cell-intrinsic adaptation of lipid composition to local crowding drives social behaviour. Nature; 523:88-91, 2015
A hierarchical map of regulatory genetic interactions in membrane trafficking. Cell; 157:1473-87, 2014
Image-based transcriptomics in thousands of single human cells at single-molecule resolution. Nat Methods; 10:1127-33, 2013

Seminar Chris Bakal – Tuesday October 6, 2015 (14.00, 8th floor RIMLS)

On Tuesday October 6, 2015, dr. Chris Bakal from the Institute of Cancer Research, London (UK) will give a presentation entitled: “Using statistical cell biology to understand the emergence of phenotypic heterogeneity in cancer cell populations” at 14.00 in the Figdor Lecture Theatre on the 8th floor of the RIMLS building.


Dr. Chris Bakal’s Dynamical Cell Systems Team uses genomic approaches and computational modelling to understand how complex biochemical signalling networks are ‘rewired’ during the development of cancer.

Key publications

  • A screen for morphological complexity identifies regulators of switch-like transitions between discrete cell shapes. Nat Cell Biol. 2013.
  • Visualizing cellular imaging data using PhenoPlot. Nat Commun. 2015.
  • Cell shape and the microenvironment regulate nuclear translocation of NF-κB in breast epithelial and tumor cells.  Mol Syst Biol. 2015.

Seminar Tamar Geiger – Wednesday September 23, 2015 (09.30, 8th floor RIMLS)

On Wednesday September 23, 2015, dr. Tamar Geiger from the Tel Aviv University, Israel  will give a presentation entitled: “System-wide clinical proteomics of breast cancer reveals global remodeling of cellular homeostasis” at 09.30 in the Figdor Lecture Theatre on the 8th floor of the RIMLS building.


The genomic and transcriptomic landscapes of breast cancer have been extensively studied, but the proteomes of breast tumors are far less characterized. In recent years, developments in mass spectrometric technology, sample preparation techniques and computational analysis opened new possibilities for genome-scale proteomic analysis of clinical samples. We used the recently developed super-SILAC mix, which is a mixture of lysates of five SILAC-labeled cell lines that serves as an internal standard for accurate tissue quantification. Combined with high-resolution, high-accuracy mass spectrometry we performed a deep analysis of breast cancer progression using clinical breast samples from lymph node negative and lymph node positive luminal tumors, as well as matched lymph node metastases and healthy breast epithelia. We quantified over 10,000 proteins with high accuracy, enabling us to identify key proteins and pathways that regulate tumorigenesis and metastatic spread. Surprisingly, we found an anti-Warburg effect dominating the metabolic changes, in which the cancer cells show higher oxidative phosphorylation and lower glycolytic activity. In addition, we extracted a 65-protein signature that predicts lymph node involvement based solely on the primary tumor, which may hold important clinical significance in disease management and treatment.