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

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.

Jennifer Jensen

I started my PhD in spring of 2024, titled “Facilitating early diagnosis and treatment of interstitial lung disease in patients with rheumatoid arthritis” In collaboration with RöttgerLAB at SDU, the department of Rheumatology and the department of Respiratory medicine at Odense University Hospital (OUH). My academic credentials include a Master’s degree in computational Biomedicine where I completed my thesis with Richard Röttger as the main supervisor in collaboration with the Rheumatology department at OUH and a Bachelor’s degree in Biomedicine, both from the University of Southern Denmark. Specifically for my PhD I will be utilizing machine learning and deep learning methods to investigate HRCT images along with various clinical measurement and plasma protein concentrations to facilitate early diagnosis of interstitial lung disease in patients with rheumatoid arthritis.

E-Mail:
Office: V9-601b-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.

Lucas Alexander Damberg Torp Dyssel

Since September 2023, I’ve been working as a 4+4 student at SDU on my Ph.D. in Bioinformatics under the supervision of Richard Röttger. My academic credentials include a bachelor’s degree in computer science from the University of Copenhagen. I’ve been fascinated by deep learning since my bachelor thesis “classification and localization of pathology from weakly labeled CT scans using machine learning” and have chosen to specialize in the field.

During my Ph.D., I will work on the MOPITAS project, analyzing spatial transcriptomics and single-cell RNA sequencing data, with a focus on the project’s computational aspects.

E-Mail:
Office: V9-602a-2. Interactive Room map.

Nicolai Dinh Khang Truong

I am a PhD student at RöttgerLab since September 2023. I earned both my bachelor’s and master’s degrees in Computer Science from SDU between 2018 and 2023. I also completed a semester abroad at Gothenburg University as a part of my exchange program.

In my bachelor’s project, I utilized ensemble learning methods to determine how likely the topics of the news articles are related to health. During my master’s, I fine-tuned a large language model to interpret the teachers’ wishes expressed in natural language for timetable scheduling. The output of the large language model is later used to generate the best possible schedules.

I was also hired as a research assistant at RöttgerLab in the period January - June 2023 to design and implement federated machine learning algorithms of multi-OMICS in the FeatureCloud project.

Today, I am working on an EU-wide project, Screen4Care, where we in particular develop a metadata repository allowing us to perform privacy-preserving federated machine learning algorithms of biomedical data.

E-Mail:
Office: V9-601b-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.

Shamim Ahmed

I have been a PhD student at RöttgerLab since April 2024. I earned my master’s degree in Computer Science from the Indian Institute of Engineering Science and Technology (IIEST), Shibpur, India, in 2021.

After completing my master’s, I worked for an AI startup to build a Data Analytics platform for automated data analytics. I then joined the American multinational company McKinsey & Company as a Software Developer (Fullstack, cloud), where I also contributed to various Data Science projects. During this time, I built and developed scalable systems and applications for companies around the world.

For my master’s project, my research topic was Digital Forensics. I focused on detecting forged images and classifying and localizing them using deep learning. I published my work in a research paper, where I developed a novel U-Net architecture embedded with the EfficientNet ImageNet architecture.

Currently, I am working on an EU-wide project called Screen4Care. In this project, we are developing a metadata repository that allows us to perform privacy-preserving federated machine learning algorithms on biomedical data. We are also building federated machine learning models using the biomedical data.

E-Mail:
Office: V9-601b-2. Interactive Room map.

Tomás Bordoy Garcia-Carpintero

I hold a Software Engineer Bachelor’s Degree specializing in Computer Science from the University of the Balearic Islands, Spain. For my thesis, I developed an application in collaboration with medical staff to digitalize segmented pain maps, which was adapted and used by a clinic. Meanwhile, I worked part-time as a Software Developer integrating connections between suppliers and touristic search engines in TravelGateX.

During my Computer Science Master’s at SDU, I participated in the FeatureCloud project as an Assistant Researcher, working on federating machine learning algorithms. My Ph.D. work is centered on the MOPITAS project, which analyzes sequential data by studying single-cell RNA and spatial transcriptomics together

E-Mail:
Office: V9-602a-2. Interactive Room map.

Kristóf Péter

I started working as a research assistant on the MOPITAS project at RöttgerLab in May 2024. I hold a Bachelor’s Degree in Mathematics with applied mathematics specialization from Eötvös Loránt University, Hungary. I wrote my thesis in the area of Numerical Analysis, focusing on Finite-difference approximations of the Laplace operator. I developed numerical methods to solve certain specific types of partial differential equations, for example, the Poisson equation. From February 2024 I am an Applied Mathematics Master’s student at SDU, specializing in Statistics and Data Science. I am working on combining my knowledge of mathematics with machine learning techniques to explore their direct applications in scientific research.

E-Mail:
Office: V9-602a-2. Interactive Room map.

Nikolaj Flindt Holm Hansen

I am currently working as a research assistant on the MOPITAS project at RöttgerLab. I hold both a bachelor’s degree and a masters degree in computer science from SDU. For my bachelor project I made an object oriented programming language with 2 fellow students, and for my master thesis I worked on combining Denoising Diffusion Probabilistic Models and Denoising Diffusion Implicit Models with Generative Flow Networks. I was originally hired as a research assistant at RöttgerLab on the FeatureCloud Project in October 2023, where I worked on bugfixing and additional feature implementation on federated machine learning applications developed at SDU.

E-Mail:
Office: V9-602a-2. Interactive Room map.