Head of the Group
Richard Röttger
I am a Professor for Bioinformatics at the University of Southern Denmark (SDU) at the
Department for Mathematics and Computer Science (IMADA) and head of the Computational Biology Group.
I started at SDU in Summer 2014 as Assistant Professor (promotion to Associate Professor in November
2017, promotion to Full Professor November 2022) and have since been actively research in various kinds
of machine learning of biomedical data.
In our work, we focus primarily on various aspects of machine learning and data mining of
biomedical data and on developing innovative approaches for systems medicine. Many of the
projects are conducted in the close cooperation with the Odense University Hospital as well as with the
Department of Biochemistry and Molecular Biology. We are involved in several large European as well as
Danish research projects.
For a detailed CV and a list of publications, see here.
For an overview of the groups projects and activities, see here.
E-Mail:
Office: V9-601a-2. Interactive Room map.
Hours: just write me an email
Web: https://roettgerlab.science
Group Members
PostDocs
Pawel Palczynski
I have joined the Computational Biology Group at SDU as a Postdoc in November of 2021. Currently I am working on
developing neural networks for protein predictions based on large scale mass spectrometry data. I hold an MEng and
a PhD degree from Imperial College London in Materials Science and Engineering. During my PhD project I have worked
on synthesis and physical characterisation of atomically thin 2D materials, optimising synthesis and preparing devices.
E-Mail:
Office: V9-602b-2. Interactive Room map.
PhD Students
Anne Hartebrodt
I am a PhD student in the Computational Biology group headed by Richard Roettger since February 2019.
I graduated from the joint Bioinformatics programme at Technical University of Munich (TUM) and
Ludwig-Maximilians-Universitaet Munich (LMU). In my Master’s Thesis at the Chair of Experimental Bioinformatics
I worked on probabilistic de-novo pathway detection in biological networks using OMICs data under the supervision of
Markus List and Jan Baumbach.
The focus of my PhD project is on privacy-aware federated machine learning, more specifically unsupervised learning
and federated data normalization methods. As part of the H2020 FeatureCloud Consortium, I work on enabling the use of
sensitive medical data for research purposes while preserving patient privacy.
E-Mail:
Office: V9-601b-2. Interactive Room map.
Mathias Emil Bøgebjerg
I have a Bachelor Degree in Computer Science from IMADA on SDU, and started my PhD as a 4+4 on the 15th of
September 2018. Medications have many years of research behind them, yet they are often ineffective on patients.
We believe that the reason for this is that the patients are ill-classified; they show the same phenotypic symptoms, but might
have different underlying causes. I work on patient stratification using unsupervised learning, to find these hidden
causes.
E-Mail:
Office: V9-601b-2. Interactive Room map.
Juan Francisco Marin Vega
I am an industrial PhD student since December August 2019 in collaboration with ESoft A/S. I hold a MSc degree in
computer science. Currently, I am working on advanced image enhancement techniques for copyediting in professional
settings.
E-Mail:
Office: V9-602a-2. Interactive Room map.
Jiawei Zhao
I have been a PhD candidate at SDU since May 2022, co-supervised by Prof. Röttger and Novo Nordisk. I hold an MSc
degree in bioinformatics at Lund University. I gained project experience in structural protein bioinformatics, web
programming, and human population genomics during my MSc studies. Currently, I am working on developing a federated
metadata repository amenable to federated ML algorithms within the Screen4Care project.
E-Mail:
Office: V9-602b-2. Interactive Room map.
Dominika Hozakowska-Roszkowska
I am a PhD student since December 2018. I hold a uniform MSc degree in Medical Laboratory Science from Medical
University of Warsaw (Poland) and MSc degree in Computational Biomedicine from University of Southern Denmark.
Currently, I am working on a large-scale analysis and machine learning of the distribution of genetic traits in
populations.
E-Mail:
Office: V9-601b-2. Interactive Room map.
Tobias Greisager Rehfeldt
I started my Ph.D. right after the completion of my Masters degree in 2020. I am currently residing in the
Bioinformatics department of SDU headed by Richard Röttger.
I have a masters' degree in Computational Biomedicine and a bachelors' degree in Economics. My masters' thesis
revolved around the idea of using mass spectrometry data coupled with neural networks, in an attempt to circumvent
parts of the current MS pipeline. This is also the project that later developed into my Ph.D. position here at SDU.
Daily I sit and work trying to come up with new ways of extrapolating and using mass spectrometry data, and
finding new and innovative neural network architectures.
E-Mail:
Office: V9-602a-2. Interactive Room map.
Muhammad Irfan Malik
I am a PhD student in the Computational Biology group headed by Richard Röttger since April 2022.
I hold a master’s degree in computer science. I gained project experience in unsupervised Lifelong Machine learning
for Data Analysis. I graduated from National University of Computer and Emerging Sciences (FAST) Pakistan.
The focus of my PhD research work is on developing a federated metadata repository amenable to privacy-aware federated
machine learning algorithms within the Screen4Care project, artificial intelligence (AI)-based tools for the early
identification of undiagnosed patients.
E-Mail:
Office: V9-602b-2. Interactive Room map.
Student Members
Margrethe Crisostomo Thusholt
Detecting and quantifying vulnerable exon in a splice junction database - Individual Study Activity
Annika Andersen and Palle Sorth Bendixen
TBA - Master thesis Data Science
Rasmus Victor Jensen
TBA - Master thesis Computational Biomedicine
Jennifer Rugaard Bregndahl Jensen
Time series analysis of plasma protein profiles for randomized control trial of psoriatic arthritis patients. - Master thesis Computational Biomedicine
Casper Juul Majgaard Nielsen
Applied generative adversarial networks for high resolution images - Master thesis in Computer Science
Villads Winton
In silico integration of spatial transcriptomics with scRNAseq - Master thesis Computational Biomedicine
Zsófia Magyar
Studying vulnerable exons and finding effective ways for prediction - Master thesis Computational Biomedicine