Steinn Gudmundsson
Associate professor in the Dept. of Computer Science

Research interests
Optimization in systems biology, metabolic engineering, machine learning, medical applications of pattern recognition

Teaching
2018 Machine learning, Mathematics and scientific computing, Introduction to systems biology
2017 Algorithms, logic and complexity, Introduction to systems biology, Nonlinear optimization (part)
2016 Algorithms, logic and complexity, Introduction to systems biology, Formal languages and computability, Optimization in systems biology
2015 Algorithms, logic and complexity, Introduction to systems biology, Formal languages and computability
2014 Discrete structures in mathematics
2013 Software development, Discrete structures in mathematics
2012 Discrete structures in mathematics, Nonlinear optimization, Software development
2011 Discrete structures in mathematics, Nonlinear optimization, Software development, Optimization in systems biology
2010 Operations research, Reliability of systems, Engineering optimization (part)

Education
2010 PhD in Computer Science, University of Iceland
1998 MSc in Engineering, Technical University of Denmark
1996 CSc in Mechanical Engineering, University of Iceland

Publications
Weiqi Fu, Steinn Gudmundsson, Kristine Wichuk, Sirus Palsson, Bernhard O. Palsson, Kourosh Salehi-Ashtiani, Sigurdur Brynjolfsson. Sugar-stimulated CO2 sequestration by the green microalga Chlorella vulgaris. Science of the Total Environment, 654:275–283, 2019. (pdf, supporting material)

Kristian Jensen, Steinn Gudmundsson, Markus J. Herrgard. Enhancing Metabolic Models with Genome-Scale Experimental Data. In: Systems Biology (N. Rajewsky, S. Jurga and J. Barciszewski eds), RNA Technologies, Springer 2018. (pdf)

Freyr Johannsson, Steinn Gudmundsson, Giuseppe Paglia, Sveinn Gudmundsson, Bernhard Palsson, Olafur E. Sigurjonsson, Ottar Rolfsson. Systems analysis of metabolism in platelet concentrates during storage in platelet additive solution. Biochemical Journal, 475:13 2225-2240, 2018.

Emanuel Ron, Merichel Plaza, Thordis Kristjansdottir, Roya Sardari, Snaedis Bjornsdottir, Steinn Gudmundsson, Gudmundur Oli Hreggvidsson, Charlotta Turner, Ed van Niel, Eva Nordberg Karlsson. Characterization of carotenoids in Rhodothermus marinus. MicrobiologyOpen 7:1, 2018. (open access)

Konstantinos Vavitsas, Emil Ostergaard Rue, Lara Kristin Stefansdottir, Thiyagarajan Gnanasekaran, Andreas Blennow, Christoph Crocoll, Steinn Gudmundsson and Poul Erik Jensen. Responses of Synechocystis sp. PCC 6803 to heterologous biosynthetic pathways. Microbial Cell Factories 16(1), 2017. (pdf)

Juan Nogales, Steinn Gudmundsson, Estrella Duque, Juan Luis Ramos and Bernhard O. Palsson. Expanding the computable reactome in Pseudomonas putida reveals metabolic cycles providing robustness. bioRxiv 2017.

Steinn Gudmundsson, Lucia Agudo and Juan Nogales. Applications of genome-scale metabolic models of microalgae and cyanobacteria in biotechnology. In Microalgae-Based Biofuels and Bioproducts (R. Munoz and C. Gonzales eds.) Elsevier 2017. (pdf)

Skarphedinn Halldorsson, Neha Rohatgi, Manuela Magnusdottir, Kumari Sonal Choudhary, Thorarinn Guðjónsson, Erik Knutsen, Anna Barkovskaya, Bylgja Hilmarsdottir, Maria Perander, Gunhild M. Mælandsmo, Steinn Gudmundsson and Óttar Rolfsson. Metabolic re-wiring of isogenic breast epithelial cell lines following epithelial to mesenchymal transition. Cancer letters 396(28):117-129, 2017.

Ottar Rolfsson, Ólafur E Sigurjonsson, Manuela Magnusdottir, Freyr Johannsson, Giuseppe Paglia, Steinn Gudmundsson, Aarash Bordbar, Sirus Palsson, Sigurdur Brynjólfsson, Sveinn Gudmundsson and Bernhard Palsson. Metabolomics comparison of red cells stored in four additive solutions reveals differences in citrate anticoagulant permeability and metabolism. Vox Sanguinis 112(4):326-335, 2017.

Kumari Sonal Choudhary, Neha Rohatgi, Skarphedinn Halldorsson, Eirikur Briem, Thorarinn Gudjonsson, Steinn Gudmundsson and Ottar Rolfsson. EGFR signal-network reconstruction demonstrates metabolic crosstalk in EMT. PLoS Comput Biol 12(6), 2016. (open access)

Neha Rohatgi, Steinn Gudmundsson, Ottar Rolfsson. Kinetic analysis of gluconate phosphorylation by human gluconokinase using isothermal titration calorimetry. FEBS Letters 589(23):3548–3555, 2015. (pdf)

Tommaso Pacini, Weiqi Fu, Steinn Gudmundsson, Antonio Eugenio Chiaravalle, Sigurdur Brynjolfson, Bernhard Palsson, Giuseppe Astarita and Giuseppe Paglia. Multidimensional analytical approach based on UHPLC-UV-ion mobility-MS for the screening of natural pigments. Analytical Chemistry, 87(5), 2015. (pdf)

Steinn Gudmundsson, Juan Nogales. Cyanobacteria as photosynthetic biocatalysts: A systems biology perspective. Molecular BioSystems, 11:60-70, 2015. (pdf)

Weiqi Fu, Giuseppe Paglia, Manuela Magnusdottir, Elin A Steinarsdottir, Steinn Gudmundsson, Bernhard O Palsson, Olafur S Andresson and Sigurdur Brynjolfsson. Effects of abiotic stressors on lutein production in the green microalga Dunaliella salina. Microbial Cell Factories 13(3), 2014 (pdf)

Juan Nogales, Steinn Gudmundsson, Ines Thiele. Toward systems metabolic engineering in cyanobacteria: Opportunities and bottlenecks. Bioengineered, 4(3), 2013 (open access)

Juan Nogales, Steinn Gudmundsson, Ines Thiele. An in silico re-design of the metabolism in Thermotoga maritima for increased biohydrogen production. Int J Hydrogen Energ, 37(17):12205-12218, 2012. (pdf, supporting material)

Juan Nogales, Steinn Gudmundsson, Eric M. Knight, Bernhard O. Palsson and Ines Thiele. Detailing the optimality of photosynthesis in cyanobacteria through systems biology analysis. PNAS January 30, 2012. (open access, version 1.1)

Steinn Gudmundsson, Thomas Philip Runarsson, Sven Sigurdsson. Test-retest reliability and feature selection in physiological time series classification. Computer Methods and Programs in Biomedicine, 105(1):50-60, 2012 (pdf)

Steinn Gudmundsson, Ines Thiele. Computationally efficient flux variability analysis. BMC Bioinformatics 2010, 11:489. (pdf, code)

Steinn Gudmundsson, Gudny Lilja Oddsdottir, Tomas Philip Runarsson, Sven Sigurdsson, Eythor Kristjansson. Detecting fraudulent whiplash claims by support vector machines. Biomedical Signal Processing and Control, 5(4):311-371, 2010 (pdf)

J. Snaedal, G.H. Johannesson, Th.E. Gudmundsson, S. Gudmundsson, T.H. Pajdak, K. Johnsen. The use of EEG in Alzheimer's disease, with and without scopolamine - a pilot study. Clin Neurophysiol. 121(6):836-41, 2010 (pubmed)

Steinn Gudmundsson, Thomas Philip Runarsson, Sven Sigurdsson. Support vector machines and dynamic time warping for time series. IEEE International Joint Conference on Neural Networks, 2008 (pdf)

Steinn Gudmundsson, Thomas Philip Runarsson, Sven Sigurdsson, Gudrun Eiriksdottir and Kristinn Johnsen. Reliability of quantitative EEG features. Clinical Neurophysiology, 118(10):2162-2171, 2007 (pdf)

Steinn Gudmundsson, Thomas Philip Runarsson and Sven Sigurdsson, Automatic Sleep Staging using Support Vector Machines with Posterior Probability Estimates. Proceedings of 2005 International Conference on Computational Intelligence for Modelling, Control and Automation, Volume 2, 28-30 Nov. pp. 366-372, 2005 (pdf)