Mattias Rantalainen

The Predictive Medicine group focus on medical research that is driven by statistical machine learning, artificial intelligence and big data. Currently our main focus is on computational pathology. I am an associate professor (docent) at the Department of Medical Epidemiology and Biostatistics where I lead the Predictive Medicine group.

I was previously a research fellow (2009-2013) with a joint affiliation at the Department of Statistics (University of Oxford) and at the Wellcome Trust Centre for Human Genetics (University of Oxford) where I worked with Professor Chris Holmes and Dr. Cecilia Lindgren. I was awarded the MRC Centenary Early Career Award (2012-2013) and a Medical Research Council (MRC) Special Training Fellowship in Biomedical Informatics (2009-2012). I had a postdoctoral position working on the data analysis work package for the MolPAGE consortium in Prof Chris Holmes’ group at the Department of Statistics in Oxford (2008). I completed my PhD at Imperial College London where I developed novel multivariate pattern recognition methods with applications in metabonomics, working together with Professor Elaine Holmes and Professor Jeremy Nicholson. I have an undergraduate degree in Engineering Biology (combined BSc/MSc) from Umeå University in Sweden.

The Predictive Medicine group focus on medical research that is driven by statistical machine learning, artificial intelligence (AI) and large population representative data sets. Currently our research is centered on projects in the computational pathology domain.

We develop and apply statistical and machine learning methodologies for predictive modelling in biomedical applications with a particular interest in precision medicine and cancer research. Our mission is to drive the development and application of data-driven approaches in cancer precision medicine and to develop and validate novel patient stratification models, including prognostic and treatment predictive applications. To achieve this we develop methods and models that allow us to transform large biomedical data into clinically relevant predictions at the individual level.

Some of our research is focused on clinical translation and implementation. Our research is based on large datasets (big-data) across multiple modalities including comprehensive molecular profiling (e.g. DNA- and RNA-sequencing), clinical information and medical imaging data (histopathology).

Main research areas
Computational pathology: AI (deep learning) driven research focusing on developing and validating models in the domain of cancer histopathology. The research is based on large population representative studies (we have >70, 000 WSIs collected in-house). The main focus is on breast, prostate and colorectal cancer (www.chimestudy.se & www.abcap.org). I coordinate the Swedish AI Precision Pathology (SwAIPP) consortium, focusing on translation and implementation of AI-based pathology (www.swaipp.org) Cancer precision medicine:* Development and validation of predictive models for improved patient stratification, based on comprehensive molecular phenotyping data (e.g. DNA- and RNA-sequencing) 

Course director: Multivariate prediction modelling with applications in precision medicine

Supervision of PhD students
* Philippe Weitz (main supervisor)
* Abhinav Sharma (main supervisor)
* Dusan Rasic (co-supervisor)
* Sandra Kristiane Sinius Pouplier (co-supervisor)
* Tewodros Yalew (co-supervisor)
* Quang Thinh Trac (co-supervisor)
* Venkatesh Chellappa Patel (co-supervisor)
* Xiaoyang Du (co-supervisor)

Former group members/supervised students

* Yinxi Wang (PhD student, main supervisor)
* Peter Ström (PhD student, co-supervisor)
* Pablo Gonzalez Ginestet (PhD student, co-supervisor)
* Charlotte Von Heijne Widlund (visiting scientist)
* Mei Wang (Postdoc; currently Research Assistant Professor, School of life science, Peking University, China)
* Arvind Mer (Postdoc, currently Assistant Professor, University of Ottawa, Canada)
* Nghia Vu (Postdoc; currently Assistant Professor, Karolinska Institutet, MEB)
* Daniel Garcia León (Postdoc)

* Yanbo Feng (Postdoc)

* Leslie Solorzano Vargas (Postdoc)
* Astrid Helzen (Technician)
* Balasz Acs (Associated postdoc)
* Kajsa Ledesma Eriksson (MSc student)
* Sandy Kang Lövgren (MSc student)
* Anton Normelius (MSc student)
* Boxi Zhang (MSc student)
* Youcheng Zhang (MSc student)