IMSB News

08.02.2017

Eirini's paper accepted in Nature Communications

Sensitive detection of rare disease-associated cell subsets via representation learning. Using CellCnn, we identify paracrine signaling-, AIDS onset- and rare CMV infection-associated cell subsets in peripheral blood, and extremely rare leukemic blast populations in minimal residual disease-like situations with frequencies as low as 0.01%. Read more 

31.01.2017

Welcome Kathrin Frey

After completing already her semester project in the Wollscheid lab, Kathrin now started her Master thesis investigating the uptake and the involved signalling pathway of HDL particles. Read more 

30.01.2017

Michael Zimmermann and Paul Murima won the Swiss TB 2017 Award!

Michael Zimmermann and Paul Murima won the Swiss TB 2017 Award for their Nature Communications paper "A rheostat mechanism governs the bifurcation of carbon flux in mycobacteria." CONGRATULATIONS! Read more 

25.01.2017

Claassen Group: Postdoctoral researcher position: single cell transcriptomics time series models for personalized medicine.

The Claassen group at the Institute for Molecular Systems Biology, ETH Zurich is offering a position for a postdoctoral researcher in computational single cell biology Read more 

19.01.2017

Aebersold lab: Semester project in identification of plant membrane protein-protein interaction

All plant cells are encapsulated by a cellulose-rich cell wall, which performs a range of functions in plant growth and development. Despite extensive research, little is known about the biosynthesis of the cellulose. This project aims to explore methods of detection of the cellulose synthase complex within the Golgi apparatus of Arabidopsis. The student will work on detergent selection for complex solubilization, after which he/she will perform AP-MS and subsequent data analysis. Read more 

17.01.2017

Genome-wide landscape of gene-metabolite interactions charted for bacterium

How do gene (knock-outs) affect metabolite levels? We tested this systematically for > 3'800 genes in E. coli and found several suprises. Read more 

05.01.2017

Hafen Group Master Thesis Project: CRISPR/Cas9-mediated SNP changes to elucidate cause of size variations

The project consists of three objectives: (1) evaluation of the PWAS candidates by transgenic RNAi, (2) establishment of efficient fly CRISPR/Cas9 method(s) for SNP changes, and (3) SNP changes in inbred natural population lines. We have already achieved significant progress on the first two objectives. Therefore, student(s) will be able to obtain results using newly generated reagents/systems soon after initiating the project.  Read more 

29.12.2016

Semester project (Sauer group): Discovery of novel kinases in E. coli that regulate enzyme activity

Research project available on the discovery of novel kinases in E. coli that are crucial for enzyme activity regulation in metabolism. Read more 

28.12.2016

Metabotypes of breast cancer cell lines revealed by non-targeted metabolomics

A metabolome and network centric analysis of 18 breast cancer cell lines reveals a fine-grained metabolic heterogeneity. The study will appear in a special issue of Metabolic Engineering devoted to cancer metabolism. We thank the team of our collaborator Prof. Almut Schulze (Würzburg). Read more 

20.12.2016

Nontargeted in vitro metabolomics for high-throughput identification of novel enzymes in Escherichia coli

About 15'000 high-throughput, non-targeted metabolomics analyses were acquired to study >1'200 functionally uncharacterized proteins. The study was just published by Daniel Sévin and co. in Nature Methods. Read more 

07.12.2016

Sauer group: Interplay of posttranslational modification sites in enzyme activity regulation (Master project)

Research project available on investigating the interplay and protein activity fine-tuning of different posttranslational modifications (PTM) sites Read more 

07.12.2016

Sauer group: Metabolomics and Flux Balance Analysis in Saccharomyces cerevisiae (Semester/Master Project)

Research project available on investigating the regulation of metabolism in S. cerevisiae, via enzyme phosphorylation Read more 

06.12.2016

Epigenetic stress responses induce muscle stem-cell ageing by Hoxa9 developmental signals

Histone modification profiling in rare stem cell populations: our collaborative work on the epigenetics in muscle stem cell aging got published in Nature! Read more 

03.12.2016

Aebersold lab: Master thesis/semester project in quantitative AP-MS of signaling complexes

TNF-alpha is a cytokine playing a fundamental role in inflammation that induces the formation of a large signaling complex associated with its receptor. The project will entail optimization of AP-MS workflow applied to this complex. The student will learn protein purification, experimental and computational aspects of AP-MS and possibly other proteomics techniques. The student is expected to know basics of mass spectrometry and cell culture and have a strong interest in method development. Read more 

03.12.2016

Aebersold lab: Master Thesis in Population Genetics—Analyzing Proteomics in a Diverse Population to Uncover Mechanisms of Aging

The process of aging can be better understood from a systems biology approach—examining how entire cellular pathways change across time. This project involves generating then analyzing transcriptomic, proteomic, and metabolomic data from liver tissue of 660 individual mice from different ages, which also segregate by genetics and diet. Project keywords: genetics, aging, multi-omics, metabolism, bioinformatics, statistics, systems biology, big data, personalized medicine. Read more 

28.11.2016

Anna's paper accepted in PLOS Computational Biology.

Sparse Regression Based Structure Learning of Stochastic Reaction Networks from Single Cell Snapshot Time Series Read more 

28.11.2016

Justins' paper came out in Cell Systems

Analysis of Cell Lineage Trees by Exact Bayesian Inference Identifies Negative Autoregulation of Nanog in Mouse Embryonic Stem Cells Read more 

14.10.2016

Arginine Modulates T Cell Metabolism and Enhances Survival and Anti-tumor Activity

We are proud to announce that our joint study with prestigious colleagues of IRB Bellinzona, ETH Zurich, MPI Martinsried finally published in Cell: from omics to mechanism and anti-tumor effect in mice! Read more 

11.10.2016

Welcome Fabian Wendt

Fabian studied Biochemistry at the Ruhr-University in Bochum, Germany. He started recently as PhD student in the Wollscheid Group and will drive the development of the ligand-receptor capture (LRC) technology towards new application spaces and the characterization of dynamic protein-protein interactions. Read more 

16.09.2016

SUMOFLUX paper published!

We congratulate Maria for publishing her novel method for targeted 13C flux ratio analysis. Read more 

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