Matej Oresic
Ph.D.

Senior Research Fellow, Centre for Biotechnology (Turku Centre for Biotechnology)

matej.oresic@utu.fi
+358 29 450 3798
+358 46 923 3395

Tykistökatu 6
Turku




Areas of expertise
Systems biology, bioinformatics, metabolomics, lipidomics, biophysics, systems medicine, computational biology

Biography
Matej Orešič holds a PhD in biophysics from Cornell University (1999). He is a group leader in systems medicine at the Turku Centre for Biotechnology, University of Turku, and a principal investigator in the Academy of Finland Centre of Excellence in Molecular Systems Immunology and Physiology Research. 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
Go to first page Go to previous page 1 of 4 Go to next page Go to last page

Cord-Blood Lipidome in Progression to Islet Autoimmunity and Type 1 Diabetes (2019) Lamichhane Santosh, Ahonen Linda, Dyrlund Thomas Spartholt, Dickens Alex M., Siljander Heli, Hyöty Heikki, Ilonen Jorma, Toppari Jorma, Veijola Riitta, Hyötyläinen Tuulia, Knip Mikael, Oresic Matej
(
A1 Journal article – refereed)

Deficient Endoplasmic Reticulum-Mitochondrial Phosphatidylserine Transfer Causes Liver Disease (2019)
Cell
María Isabel Hernández-Alvarez, David Sebastián, Sara Vives, Saška Ivanova, Paola Bartoccioni, Pamela Kakimoto, Natalia Plana, Sónia R. Veiga, Vanessa Hernández, Nuno Vasconcelos, Gopal Peddinti, Anna Adrover, Mariona Jové, Reinald Pamplona, Isabel Gordaliza-Alaguero, Enrique Calvo, Noemí Cabré, Rui Castro, Antonija Kuzmanic, Marie Boutant, David Sala, Tuulia Hyotylainen, Matej Orešič, Joana Fort, Ekaitz Errasti-Murugarren, Cecilia M.P. Rodrígues, Modesto Orozco, Jorge Joven, Carles Cantó, Manuel Palacin, Sonia Fernández-Veledo, Joan Vendrell, Antonio Zorzano
(
A1 Journal article – refereed)

Effect of perfluorooctanesulfonic acid (PFOS) on the liver lipid metabolism of the developing chicken embryo (2019)
Ecotoxicology and Environmental Safety
Geng D., Musse A., Wigh V., Carlsson C., Engwall M., Orešič M., Scherbak N., Hyötyläinen T.
(
A1 Journal article – refereed)

Integrated Lipidomics and Proteomics Point to Early Blood-Based Changes in Childhood Preceding Later Development of Psychotic Experiences: Evidence From the Avon Longitudinal Study of Parents and Children (2019)
Biological Psychiatry
Madrid-Gambin F., Föcking M., Sabherwal S., Heurich M., English J., O'Gorman A., Suvitaival T., Ahonen L., Cannon M., Lewis G., Mattila I., Scaife C., Madden S., Hyötyläinen T., Orešič M., Zammit S., Cagney G., Cotter D., Brennan L.
(
A1 Journal article – refereed)

Metabolic Modeling of Human Gut Microbiota on a Genome Scale: An Overview (2019)
Metabolites
Partho Sen, Matej Orešič
(
A2 Review article in a scientific journal)

Persistent Alterations in Plasma Lipid Profiles Before Introduction of Gluten in the Diet Associated With Progression to Celiac Disease. (2019)
Clinical and Translational Gastroenterology
Sen P, Carlsson C, Virtanen SM, Simell S, Hyöty H, Ilonen J, Toppari J, Veijola R, Hyötyläinen T, Knip M, Orešič M
(
A1 Journal article – refereed)

The Consortium of Metabolomics Studies (COMETS): Metabolomics in 47 Prospective Cohort Studies (2019)
American Journal of Epidemiology
Bing Yu, Krista A Zanetti, Marinella Temprosa, Demetrius Albanes, Nathan Appel, Clara Barrios Barrera, Yoav Ben-Shlomo, Eric Boerwinkle, Juan P Casas, Clary Clish, Caroline Dale, Abbas Dehghan, Andriy Derkach, A Heather Eliassen, Paul Elliott, Eoin Fahy, Christian Gieger, Marc J Gunter, Sei Harada, Tamara Harris, Deron R Herr, David Herrington, Joel N Hirschhorn, Elise Hoover, Ann W Hsing, Mattias Johansson, Rachel S Kelly, Chin Meng Khoo, Mika Kivimäki, Bruce S Kristal, Claudia Langenberg, Jessica Lasky-Su, Deborah A Lawlor, Luca A Lotta, Massimo Mangino, Loïc Le Marchand, Ewy Mathé, Charles E Matthews, Cristina Menni, Lorelei A Mucci, Rachel Murphy, Matej Oresic, Eric Orwoll, Jennifer Ose, Alexandre C Pereira, Mary C Playdon, Lucilla Poston, Jackie Price, Qibin Qi, Kathryn Rexrode, Adam Risch, Joshua Sampson, Wei Jie Seow, Howard D Sesso, Svati H Shah, Xiao-Ou Shu, Gordon C S Smith, Ulla Sovio, Victoria L Stevens, Rachael Stolzenberg-Solomon, Toru Takebayashi, Therese Tillin, Ruth Travis, Ioanna Tzoulaki, Cornelia M Ulrich, Ramachandran S Vasan, Mukesh Verma, Ying Wang, Nick J Wareham, Andrew Wong, Naji Younes, Hua Zhao, Wei Zheng, Steven C Moore
(
A1 Journal article – refereed)

A computational framework to integrate high-throughput ‘-omics’ datasets for the identification of potential mechanistic links (2018)
Nature Protocols
Helle Krogh Pedersen, Sofia K. Forslund, Valborg Gudmundsdottir, Anders Østergaard Petersen, Falk Hildebrand, Tuulia Hyötyläinen, Trine Nielsen, Torben Hansen, Peer Bork, S. Dusko Ehrlich, Søren Brunak, Matej Oresic, Oluf Pedersen, Henrik Bjørn Nielsen
(
A1 Journal article – refereed)

A longitudinal plasma lipidomics dataset from children who developed islet autoimmunity and type 1 diabetes (2018) Lamichhane S, Ahonen L, Dyrlund TS, Siljander H, Hyöty H, Ilonen J, Toppari J, Veijola R, Hyötyläinen T, Knip M, Orešič M
(
A1 Journal article – refereed)

Analysis of microbiota in first episode psychosis identifies preliminary associations with symptom severity and treatment response (2018)
Schizophrenia Research
Schwarz E, Maukonen J, Hyytiainen T, Kieseppa T, Oresic M, Sabunciyan S, Mantere O, Saarela M, Yolken R, Suvisaari J
(
A1 Journal article – refereed)

Dynamics of Plasma Lipidome in Progression to Islet Autoimmunity and Type 1 Diabetes - Type 1 Diabetes Prediction and Prevention Study (DIPP) (2018)
Scientific Reports
Santosh Lamichhane, Linda Ahonen, Thomas Sparholt Dyrlund, Esko Kemppainen, Heli Siljander, Heikki Hyöty, Jorma Ilonen, Jorma Toppari, Riitta Veijola, Tuulia Hyötyläinen, Mikael Knip, Matej Oresic
(
A1 Journal article – refereed)

Gut metabolome meets microbiome: A methodological perspective to understand the relationship between host and microbe (2018)
Methods
Santosh Lamichhane, Partho Sen, Alex M.Dickens, Matej Orešič, Hanne Christine Bertram
(
A1 Journal article – refereed)

Lipidome as a predictive tool in progression to type 2 diabetes in Finnish men (2018)
Metabolism
Tommi Suvitaival, Isabel Bondia-Pons, Laxman Yetukuri, Päivi Pöhö, John J. Nolan, Tuulia Hyötyläinen, Johanna Kuusisto, Matej Orešič
(
A1 Journal article – refereed)

MS-based lipidomics of human blood plasma: a community-initiated position paper to develop accepted guidelines (2018)
Journal of Lipid Research
Bo Burla, Makoto Arita, Masanori Arita, Anne K. Bendt, Amaury Cazenave-Gassiot, Edward A. Dennis, Kim Ekroos, Xianlin Han, Kazutaka Ikeda, Gerhard Liebisch, Michelle K. Lin, Tze Ping Loh, Peter J. Meikle, Matej Orešič, Oswald Quehenberger, Andrej Shevchenko, Federico Torta, Michael J. O. Wakelam, Craig E. Wheelock, Markus R. Wenk
(
A1 Journal article – refereed)

Perspectives on systems modeling of human peripheral blood mononuclear cells (2018)
Frontiers in Molecular Biosciences
Partho Sen, Esko Kemppainen, Matej Orešič
(
A2 Review article in a scientific journal)

Platform for systems medicine research and diagnostic applications in psychotic disorders-The METSY project (2018)
European Psychiatry
Elisabeth Frank, Dieter Maier, Juha Pajula, Tommi Suvitaival, Faith Borgan, Markus Butz-Ostendorf, Alexander Fischer, Jarmo Hietala, Oliver Howes, Tuulia Hyötyläinen, Joost Janssen, Heikki Laurikainen, Carmen Moreno, Jaana Suvisaari, Mark Van Gils, Matej Orešič
(
A2 Review article in a scientific journal)

Saturated Fat Is More Metabolically Harmful for the Human Liver Than Unsaturated Fat or Simple Sugars (2018)
Diabetes Care
Luukkonen PK, Sadevirta S, Zhou Y, Kayser B, Ali A, Ahonen L, Lallukka S, Pelloux V, Gaggini M, Jian C, Hakkarainen A, Lundbom N, Gylling H, Salonen A, Oresic M, Hyotylainen T, Orho-Melander M, Rissanen A, Gastaldelli A, Clement K, Hodson L, Yki-Jarvinen H
(
A1 Journal article – refereed)

Serum Metabolites Associated with Computed Tomography Findings after Traumatic Brain Injury (2018)
Journal of Neurotrauma
Dickens AM, Posti JP, Takala RSK, Ala-Seppala H, Mattila I, Coles JP, Frantzen J, Hutchinson PJ, Katila AJ, Kyllonen A, Maanpaa HR, Newcombe V, Outtrim J, Tallus J, Carpenter KLH, Menon DK, Hyotylainen T, Tenovuo O, Oresic M, Oresic M
(
A1 Journal article – refereed)

Serum, plasma and erythrocyte membrane lipidomes in infants fed formula supplemented with bovine milk fat globule membranes (2018)
Pediatric Research
Hyötyläinen T., Hernell O., Lönnerdal B., Knip M., Timby N., Orešič M., Grip T., Dyrlund T., Ahonen L., Domellöf M.
(
A1 Journal article – refereed)

Targeted Serum Metabolite Profiling Identifies Metabolic Signatures in Patients with Alzheimer's Disease, Normal Pressure Hydrocephalus and Brain Tumor (2018)
Frontiers in Neuroscience
Matej Orešic, Gabriella Anderson, Ismo Mattila, Manoucher Manoucheri,
Hilkka Soininen, Tuulia Hyötyläinen, Cherlynn Basignani

(
A1 Journal article – refereed)


Last updated on 2019-16-09 at 02:22