Matej Oresic profile picture
Matej
Oresic
InFLAMES Flagship
Professor, Turku Bioscience Centre
Ph.D.

Contact

+358 29 450 3798
+358 46 923 3395
Tykistökatu 6
20520
Turku

Links

http://www.symmys.fi/matej.html
ORCID

Areas of expertise

Systems biology
bioinformatics
metabolomics
lipidomics
biophysics
systems medicine
computational biology

Biography

Professor Matej Orešič holds a PhD in biophysics from Cornell University. He is Professor of Medical Sciences with Specialization in Systems Medicine at School of Medical Sciences (Örebro University, Sweden), Group Leader in Systems Medicine at the Turku Bioscience Centre (University of Turku, Finland), and Guest Professor at the Oil Crops Research Institute Chinese Academy of Agricultural Sciences (Wuhan, PR China). His main research areas are metabolomics applications in biomedical research and integrative bioinformatics. He is particularly interested in the identification of disease vulnerabilities associated with different metabolic phenotypes and the underlying mechanisms linking these vulnerabilities with the development of specific disorders or their co-morbidities, with specific focus on obesity and diabetes and their co-morbidities. Dr. Orešič has also initiated the popular MZmine open source project, leading to popular software for metabolomics data processing. Previosuly, Dr. Orešič was principal investigator at Steno Diabetes Center (Gentofte, Denmark), research professor at VTT Technical Research Centre of Finland (Espoo, Finland), head of computational biology and modeling at Beyond Genomics, Inc. (Waltham/MA) and bioinformatician at LION Bioscience Research in Cambridge/MA. In 2016, Dr. Oresic received the Lifetime Honorary Fellow award from the Metabolomics Society.

Research

Our main research area is systems medicine, particularly metabolomics applications in biomedical research and related integrative bioinformatics. Specifically, we am particularly interested in the identification of disease vulnerabilities associated with different metabolic phenotypes and the underlying mechanisms linking these vulnerabilities with the development of specific disorders or their co-morbidities. Such in depth understanding of the metabolic phenotypes in health and disease is crucial if one is to implement personalized medicine. Dr. Orešič initiated the popular MZmine open source project, leading to popular software for metabolomics data processing. Main ongoing projects: Strategic Research Agreement, Juvenile Diabetes Research Foundation (9/2016-9/2018): Metabolomic and Proteomic markers staging progression to type 1 diabetes in autoantibody positive children – PI Strategic Research Agreement, Juvenile Diabetes Research Foundation (9/2016-9/2018): Mother-infant interactions in relation to potential biomarkers of beta-cell autoimmunity and type 1 diabetes – PI Academy of Finland Centre of Excellence in Molecular Systems Immunology and Physiology Research (2012-2017) - PI Strategic Research Agreement, Juvenile Diabetes Research Foundation (Integrative multi-omic study of early progression to type 1 diabetes; 2014-2017) - PI pHealth Programme, multi-PI collaborative project, Academy of Finland (Personalised medicine to predict and prevent Type 1 Diabetes; 9/2015-8/2019) – Co-PI EU H2020 EPoS (Elucidating Pathways of Steatohepatitis) - Workpackage leader EU FP7 METSY (Integrated neuroimaging and metabolic platform for characterisation of early psychosis and prediction of patient outcomes) - Coordinator

Publications

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Increased serum miR-193a-5p during non-alcoholic fatty liver disease progression: Diagnostic and mechanistic relevance (2022)

JHEP Reports
Katherine Johnson, Peter J Leary, Olivier Govaere, Matthew J Barter, Sarah H Charlton, Simon J Cockell, Dina Tiniakos, Michalina Zatorska, Pierre Bedossa, M Julia Brosnan, Jeremy F Cobbold, Mattias Ekstedt, Guruprasad P Aithal, Karine Clément, Jörn M Schattenberg, Jerome Boursier, Vlad Ratziu, Elisabetta Bugianesi, Quentin M Anstee, Ann K Daly, on behalf of the
LITMUS Consortium Investigators,

James Clark, Heather J Cordell, Rebecca Darlay, Christopher P Day, Tim Hardy, Yang-Lin Liu, Fiona Oakley, Jeremy Palmer, Rachel Queen, Kristy Wonders, Patrick M Bossuyt, Adriaan G Holleboom, Hadi Zafarmand, Yasaman Vali, Jenny Lee, Karine Clement, Raluca Pais, Detlef Schuppan, Michael Allison, Sergio Rodriguez Cuenca, Vanessa Pellegrinelli, Michele Vacca, Antonio Vidal-Puig, Tuulia Hyötyläinen, Aidan McGlinchey, Matej Orešič, Partho Sen, Jose Mato, Óscar Millet, Jean-Francois Dufour, Stephen Harrison, Stefan Neubauer, Michael Pavlides, Ferenc Mozes, Salma Akhtar, Rajarshi Banerjee, Matt Kelly, Elizabeth Shumbayawonda, Andrea Dennis, Charlotte Erpicum, Manuel Romero-Gomez, Rocío Gallego-Durán, Isabel Fernández, Morten Karsdal, Diana Leeming, Mette Juul Fisker, Elisabeth Erhardtsen, Daniel Rasmussen, Per Qvist, Antonia Sinisi, Estelle Sandt, Maria Manuela Tonini, Maurizio Parola, Chiara Rosso, Fabio Marra, Amalia Gastaldelli, Sven Francque, Stergios Kechagias, Hannele Yki-Järvinen, Kimmo Porthan, Saskia van Mil, George Papatheodoridis, Helena Cortez-Pinto, Luca Valenti, Salvatore Petta, Luca Miele, Andreas Geier, Christian Trautwein, Paul Hockings, Phil Newsome, David Wenn, Cecília Maria Pereira Rodrigues, Rémy Hanf, Pierre Chaumat, Christian Rosenquist, Aldo Trylesinski, Pablo Ortiz, Kevin Duffin, Carla Yunis, Melissa Miller, Theresa Tuthill, Judith Ertle, Ramy Younes, Leigh Alexander, Rachel Ostroff, Mette Skalshøi Kjær, Lars Friis Mikkelsen, Clifford Brass, Lori Jennings, Maria-Magdalena Balp, Miljen Martic, Guido Hanauer, Sudha Shankar, Richard Torstenson, Céline Fournier, Richard Ehman, Michael Kalutkiewicz, Kay Pepin, Joel Myers, Diane Shevell, Gideon Ho, Henrik Landgren, Rob Myers, Lynda Doward, Diane Whalley, James Twiss
(A1 Vertaisarvioitu alkuperäisartikkeli tieteellisessä lehdessä )

Metabolic signatures across the full spectrum of non-alcoholic fatty liver disease (2022)

JHEP Reports
McGlinchey Aidan J, Govaere Oivier, Geng Dawei, Ratziu Vlad, Allison Michael, Bousier Jerome, Petta Salvatore, de Oliviera Claudia, Bugianesi Elisabetta, Schattenberg Jörn M, Daly Ann K, Hyötyläinen Tuulia, Anstee Quentin M, Orešič Matej
(Vertaisarvioitu alkuperäisartikkeli tai data-artikkeli tieteellisessä aikakauslehdessä (A1))

Permutation-based significance analysis reduces the type 1 error rate in bisulfite sequencing data analysis of human umbilical cord blood samples (2022)

Epigenetics
Laajala Essi, Halla-Aho Viivi, Grönroos Toni, Kalim Ubaid Ullah, Vähä-Mäkilä Mari, Nurmio Mirja, Kallionpää Henna, Lietzén Niina, Mykkänen Juha, Rasool Omid, Toppari Jorma, Oresic Matej, Knip Mikael, Lund Riikka, Lahesmaa Riitta, Lähdesmäki Harri
(Vertaisarvioitu alkuperäisartikkeli tai data-artikkeli tieteellisessä aikakauslehdessä (A1))

Umbilical cord blood DNA methylation in children who later develop type 1 diabetes (2022)

Diabetologia
Laajala Essi, Kalim Ubaid U, Grönroos Toni, Rasool Omid, Halla-aho Viivi, Konki Mikko, Kattelus Roosa, Mykkänen Juha, Nurmio Mirja, Vähä-Mäkilä Mari, Kallionpää Henna, Lietzen Niina, Ghimire Bishwa R, Laiho Asta, Hyöty Heikki, Elo Laura L, Ilonen Jorma, Knip Mikael, Lund Riikka J, Orešič Matej, Veijola Riitta, Lähdesmäki Harri, Toppari Jorma, Lahesmaa Riitta
(Vertaisarvioitu alkuperäisartikkeli tai data-artikkeli tieteellisessä aikakauslehdessä (A1))

Analysis of the SYSDIET Healthy Nordic Diet randomized trial based on metabolic profiling reveal beneficial effects on glucose metabolism and blood lipids (2022)

Clinical Nutrition
Gürdeniz Gözde, Uusitupa Matti, Hermansen Kjeld, Savolainen Markku J, Schwab Ursula, Kolehmainen Marjukka, Brader Lea, Cloetens Lieselotte, Herzig Karl-Heinz, Hukkanen Janne, Rosqvist Fredrik, Ulven Stine Marie, Gunnarsdóttir Ingibjörg, Thorsdottir Inga, Oresic Matej, Poutanen Kaisa S, Risérus U, Åkesson Björn, Dragsted Lars Ove
(Vertaisarvioitu alkuperäisartikkeli tai data-artikkeli tieteellisessä aikakauslehdessä (A1))

Correction: Integration of metabolomics and expression of glycerol-3-phosphate acyltransferase (GPAM) in breast cancer-link to patient survival, hormone receptor status, and metabolic profiling (Journal of Proteome Research (2012) 11:2 (850-860) DOI: 10.1021/pr200685r) (2022)

Journal of Proteome Research
Brockmöller S.F., Bucher E., Müller B.M., Budczies J., Hilvo M., Griffin J.L., Orešič M., Kallioniemi O., Iljin K., Loibl S., Darb-Esfahani S., Sinn B.V., Klauschen F., Prinzler J., Bangemann N., Ismaeel F., Fiehn O., Dietel M., Denkert C.
(O2 Muu julkaisu )
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