Mark D Robinson
Twitter @markrobinsonca
GitHub markrobinsonuzh
Google Scholar
My research interests are diverse, but more-or-less encompass the general application of statistical methods and data science to experimental data with biological applications. Often, this is within the context of genomics data types, but we are interested in methodological challenges and robust solutions in data, generally. We also try to be modern scientists, with a focus on reproducibility (repos for code) and open science (preprints).
PhD in Medical Biology (2008), University of Melbourne (Walter and Eliza Hall Institute)
MSc in Statistics (2001), University of British Columbia
BSc in Applied Mathematics and Statistics (1999), University of Guelph
Izaskun Mallona
Google Scholar
I am mainly interested in gene expression modulation, as it lays the ground for any cell fate. The questions which excite my curiosity the most are: How are gene expression programs coded? and maintained? how do they adapt during development? and disease? To mine the regulation metastructure genome-wide I’m fond of integrating gene expression and epigenomic data, and to develop methods for doing so.
BSc in Computer Engineering (2014), Open University of Catalonia
PhD (2012), Technical University of Cartagena
MSc in Agriculture Engineering (2008), Technical University of Cartagena
MSc in Biology (2007), University of Murcia
Pierre-Luc Germain
GitHub plger
Google Scholar
I gradually shifted from the humanities to bioinformatics towards the end of my PhD, worked a lot in the past on linking chromatin alterations to gene expression, and currently work mostly on the analysis of short RNA-seq and single-cell RNA-seq, as well as pre- and post-transcriptional regulation of gene expression especially in the context of neurodevelopment. I have a shared position with the ETH’s D-HEST Institute for Neurosciences.
PhD in Philosophy of science (2014), SEMM and University of Milan
MA in Philosophy (2009), University of Montreal
BA in Philosophy (2007)
Helena Lucia Crowell
Twitter @CrowellHL
In collaboration with the Bodenmiller lab lab, I have worked on correcting for spillover in CyTOF data. The preprint to this project is available on bioRxiv and has been published in cell systems. Alongside our compensation approach, I have made Finck et al.’s bead-based normalization and Zunder et al.’s single-cell deconvolution available in CATALYST (Cytometry dATa anALYSis Tools): a Bioconductor package providing tools for preprocessing and analysis of cytometry data; and have further integrated M. Nowicka’s CyTOF workflow for differential analysis into the package. As a PhD student, I am currently working on extending this framework for differential discovery to scRNA-seq data with complex experimental designs.
MSc in Computational Biology & Bioinformatics (2018), ETH Zürich
BSc in Biochemistry (2015), University of Heidelberg
Almut Lütge
I’m a PhD student with a background in Molecular Biotechnology, but already during my master I focused on Bioinformatics. I’m interested in all kinds of genomic analysis, but mainly worked with transcriptomic data, so far. My PhD project is about methods in single cell RNAseq and part of a Sinergia collaboration on defining the identity and differentiation pathways of the immune-stimulating fibroblastic tumor stroma.
MSc in Molecular Biotechnology (2018), University of Heidelberg
BSc Molecular Biotechnology (2013), University of Heidelberg
Anthony Sonrel
I am a PhD student that joined the Robinson Lab as part of the Life Science Zürich Graduate School. Through my past projects in academia and industry I worked on various topics such as NGS, GWAS summary statistics, epigenetic analyses (ChIP/ATAC-seq) and deep neural networks. In my current project, I’m evaluating and developing tools (mainly R packages) for single-cell RNA sequencing datasets. More specifically, I’m interested in developing new methodologies and new effective tools.
MSc in Molecular Life Sciences - Bioinformatics (2018), University of Lausanne
BSc of Science in Biology (2015), University of Lausanne
Reto Gerber
I joined the Robinson Lab as a PhD student after working as a Research Assistant in the group. During this time I worked on scRNA-seq data from Synovial tissue in collaboration with USZ. Furthermore I developped (R shiny app to help consolidate publication profiles of researchers) and censcyt (method for differential abundance analysis in cytometry where a covariate is subject to censoring).
MSc of Science in Computational Biology and Bioinformatics (2020), ETH, University of Zürich
BSc of Science in Biology (2017), University of Zürich
Emanuel Sonder
Twitter @EmanuelSonder
GitHub emsonder
After finishing my Master’s Thesis in the Robinson Group, I started a shared PhD position with the Schratt lab. I have a general interest in the analysis of epigenetic data (ATAC-seq, WGBS). My PhD project is focused on the reverse engineering of cell type-specific transcriptional networks by integrating different data modalities. The overarching goal is to provide insights in brain cell type specific responses to different stressors when compared with neuronal activity.
MSc in Computational Biology and Bioinformatics (2021), ETH Zürich, University of Zürich
BSc in Biology (2018), ETH Zürich
Vladyslav Korobeynyk
GitHub vkorobeynyk
I did my master thesis in single cell analysis of the adult mouse hippocampus in Jessberger Lab, HIFO, UZH. Shortly after, I started working as an intern in Systems Biology group at Roche, where I gained experience in ML and different type of sequencing technologies. Currently I am doing a shared PhD with Jessberger Lab, where my project is based on using single-cell and spatial transcriptomics data to identify molecular changes, mainly in the neurogenic niche, that drive neurogenesis to decline with age.
MSc in Biochemistry (2021), University of Zurich
BSc in Biochemistry (2017), University Nova of Lisbon
David Wissel
I am a shared PhD student between the Robinson Lab at UZH and the BoevaLab at ETH. I am broadly interested in survival analysis, single-cell and spatial transcriptomics as well as applications of machine learning to all of these.
MSc Statistics (2021), ETH Zurich
BSc Business Administration (2019), Free University of Berlin
Siyuan Luo
I’m an external PhD student from the von Meyenn lab with a background in computational biology and bioinformatics. During my master study, I worked on various topics including copy number variation and TCR/BCR repertoire analysis. Now I’m mainly interested in analyzing single-cell epigenetic data (ATAC-seq/CUT&Tag). My PhD is about methods for single-cell multi-omics data to reveal the interplay between the epigenetic layers and transcriptomics and provide insights for chronic diseases like obesity and ageing.
MSc in Computational Biology and Bioinformatics (2021), ETH Zürich, University of Zürich
BSc in Biotechnology (2018), Harbin Institute of Technology
Martin Emons
Twitter @EmonsMartin
GitHub mjemons
I am a PhD student in the Robinson Group since 2022 in the Epidemiology and Biostatistics PhD program. My general interest lies in the development of methods for biological and biomedical data science. In my master studies I worked on various topics such as statistical analysis of temporal trends or survival analysis at Roche Diagnostics. Currently, I am interested in spatial transcriptomics and the challenges in this new field.
MSc in Computational Biology and Bioinformatics (2022), ETH Zürich, University of Zürich
BSc in Biology (2019), University of Bern
Samuel Gunz
Twitter @samuelgunz
GitHub sgunz
I am a PhD student in the Robinson lab as part of the Epidemiology and Biostatistics program of the Life Science Graduate School Zurich. During my past studies, I worked with all sorts of biological data, ranging from microbial community analysis to characterizing epigenetic modifications in cancer. During this time, I acknowledged the importance of having robust and reproducible tools in research and that my interest lies in developing such. My PhD project will focus on methods for analyzing spatial omics data.
MSc in Computational Biology and Bioinformatics (2022), ETH Zurich, University of Basel and University of Zurich
BSc in Biology (2018), University of Zurich
Peiying Cai
In February 2023, I started working as a PhD student in the Robinson lab. Previously, I worked on developing analysis tools and pipelines to identify spatially variable genes from spatial transcriptomics data. My PhD research will focus on the development of statistical methods in bioinformatics, mostly for single-cell RNA-seq and spatial transcriptomics data.
MSc in Biostatistics (2022), University of Zürich
BSc of Science in Statistics (2019), Xiamen University
Yin Guo
I am a visiting PhD student with a background in statistics. I am interested in biostatistics and machine learning. My PhD project is about multi-view (multi-omics) learning. Now I’m mainly interested in the integration analysis of single-cell multi-omics datasets.
BSc of Applied Statistics (2018), Minzu University of China