Personkort bilde
Senior Engineer

Geir Villy Isaksen

Section for Enterprise Digital Services
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  • Software development and design og graphical user interfaces (Python, PyQt, Qt, Tkinter)
  • Molecular science and computational chemistry (Enzyme evolution and protein design)

  • Introduksjon til kjemi og kjemisk biologi  (KJE-1001)
  • Molecular Modeling (PhD and master)
  • Biomolecular Modeling (PhD and master)

Development of scientific software and advanced user support for high-performance computing. 

  • Isaksen, Geir Villy; Guo, Xiaohu; Söderholm, Annika; Kanchugal P, Sandesh; Warsi, Omar; Eckhard, Ulrich; Silvia, Trigüis; Gogoll, Adolf; Jerlström-Hultqvist, Jon; Åqvist, Johan; Anderson, Dan I; Selmer, Maria. Structure and mechanism of a phage-encoded SAM lyase revises catalytic function of enzyme family. eLIFE 2021. ISSN 2050-084X.s doi: https://doi.org/10.7554/eLife.61818.

  • Socan, Jaka; Isaksen, Geir Villy; Brandsdal, Bjørn Olav; Åqvist, Johan Lennart Gösta. Towards Rational Computational Engineering of Psychrophilic Enzymes. Scientific Reports 2019; Volum 9. ISSN 2045-2322.s doi: 10.1038/s41598-019-55697-4.

  • Jespers, Willem; Isaksen, Geir Villy; Andberg, Tor Arne Heim; Vasile, Silvana; van Veen, Amber; Åqvist, Johan; Brandsdal, Bjørn Olav; Gutiérrez-de-Terán, Hugo. QresFEP: An Automated Protocol for Free Energy Calculations of Protein Mutations in Q. Journal of Chemical Theory and Computation 2019; Volum 15 (10). ISSN 1549-9618.s 5461 - 5473.s doi: 10.1021/acs.jctc.9b00538.

  • Socan, Jaka; Kazemi, Masoud; Isaksen, Geir Villy; Brandsdal, Bjørn Olav; Åqvist, Johan. Catalytic Adaptation of Psychrophilic Elastase. Biochemistry 2018; Volum 57 (20). ISSN 0006-2960.s 2984 - 2993.s doi: 10.1021/acs.biochem.8b00078.

  • Isaksen, Geir Villy; Åqvist, Johan; Brandsdal, Bjørn Olav. Thermodynamics of the Purine Nucleoside Phosphorylase Reaction Revealed by Computer Simulations. Biochemistry 2017; Volum 56 (1). ISSN 0006-2960.s 306 - 312.s doi: 10.1021/acs.biochem.6b00967.

  • Åqvist, Johan; Isaksen, Geir Villy; Brandsdal, Bjørn Olav. Computation of enzyme cold adaptation. Nature Reviews Chemistry 2017; Volum 1:0051. ISSN 2397-3358.s doi: 10.1038/s41570-017-0051.

  • Åqvist, Johan; Kazemi, Masoud; Isaksen, Geir Villy; Brandsdal, Bjørn Olav. Entropy and Enzyme Catalysis. Accounts of Chemical Research 2017; Volum 50 (2). ISSN 0001-4842.s 199 - 207.s doi: 10.1021/acs.accounts.6b00321.

  • Michetti, Davide; Brandsdal, Bjørn Olav; Bon, Davide; Isaksen, Geir Villy; Tiberti, Matteo; Papaleo, Elena. A comparative study of cold-and warmadapted Endonucleases A using sequence analyses and molecular Dynamics simulations. PLOS ONE 2017; Volum 12:e0169586 (2). ISSN 1932-6203.s 1 - 18.s doi: 10.1371/journal.pone.0169586.

  • Isaksen, Geir Villy; Hopmann, Kathrin Helen; Åqvist, Johan; Brandsdal, Bjørn Olav. Computer Simulations Reveal Substrate Specificity of Glycosidic Bond Cleavage in Native and Mutant Human Purine Nucleoside Phosphorylase. Biochemistry 2016; Volum 55 (14). ISSN 0006-2960.s 2153 - 2162.s doi: 10.1021/acs.biochem.5b01347.

  • Isaksen, Geir Villy; Åqvist, Johan; Brandsdal, Bjørn Olav. Enzyme surface rigidity tunes the temperature dependence of catalytic rates. Proceedings of the National Academy of Sciences of the United States of America 2016; Volum 113 (28). ISSN 0027-8424.s 7822 - 7827.s doi: 10.1073/pnas.1605237113.

  • Isaksen, Geir Villy; Andberg, Tor Arne Heim; Åqvist, Johan; Brandsdal, Bjørn Olav. Qgui: A high-throughput interface for automated setup and analysis of free energy calculations and empirical valence bond simulations in biological systems. Journal of Molecular Graphics and Modelling 2015; Volum 60. ISSN 1093-3263.s 15 - 23.s doi: 10.1016/j.jmgm.2015.05.007.

  • Isaksen, Geir Villy; Åqvist, Johan; Brandsdal, Bjørn Olav. Protein surface softness is the origin of enzyme cold-adaptation of trypsin. PLoS Computational Biology 2014; Volum 10:e1003813 (8). ISSN 1553-734X.s doi: 10.1371/journal.pcbi.1003813.

  • Karstad, Rasmus Tørnes; Isaksen, Geir Villy; Wynendaele, Evelien; Guttormsen, Yngve; De Spiegeleer, Bart; Brandsdal, Bjørn Olav; Svendsen, John Sigurd; Svenson, Johan. Targeting the S1 and S3 Subsite of Trypsin with Unnatural Cationic Amino Acids Generates Antimicrobial Peptides with Potential for Oral Administration. Journal of Medicinal Chemistry 2012; Volum 55 (14). ISSN 0022-2623.s 6294 - 6305.s doi: 10.1021/jm3002058.

  • Flaten, Gøril Eide; Kottra, Gabor; Stensen, Wenche; Isaksen, Geir Villy; Karstad, Rasmus Tørnes; Svendsen, John Sigurd; Daniel, Hannelore; Svenson, Johan. In Vitro Characterization of Human Peptide Transporter hPEPT1 Interactions and Passive Permeation Studies of Short Cationic Antimicrobial Peptides. Journal of Medicinal Chemistry 2011; Volum 54 (7). ISSN 0022-2623.s 2422 - 2432.s doi: 10.1021/jm1015704.

  • Karstad, Rasmus Tørnes; Isaksen, Geir; Brandsdal, Bjørn Olav; Svendsen, John Sigurd; Svenson, Johan. Unnatural Amino Acid Side Chains as S1, S1 ', and S2 ' Probes Yield Cationic Antimicrobial Peptides with Stability toward Chymotryptic Degradation. Journal of Medicinal Chemistry 2010; Volum 53 (15). ISSN 0022-2623.s 5558 - 5566.s doi: 10.1021/jm1006337.

  • Lund, Bjarte Aarmo; Isaksen, Geir Villy; Wilkins, Ryan Scott; Williamson, Adele K. The Bacillus pumilus chorismate mutase. NBS vintermøte 2020 2020-01-23 - 2020-01-26 2020.

  • Isaksen, Geir Villy. Computational Understanding of Biocatalytic Evolution to Extreme Environments. Forskeropphold 2019-02-05 - 2019-02-06 2019.

  • Isaksen, Geir Villy; Brandsdal, Bjørn Olav. Tromsø VR lab (forskningsdagene 2019). Forskningsdagene 2019 2019-09-19 - 2019-09-22 2019.

  • Isaksen, Geir Villy. CUBE3 - Computational Understanding of Biocatalytic Evolution to Extreme Environments. (https://site.uit.no/cube/) (Fulltekst: https://site.uit.no/cube/ (Omtale: https://site.uit.no/cube/) (Sammendrag: https://site.uit.no/cube/) (Prosjekt: https://site.uit.no/cube/) 2019.

  • Isaksen, Geir Villy. VR-teknologi og molekylær kjemi. 2019.

  • Isaksen, Geir Villy. The entropy challenge in enzyme-catalyzed reactions – are QM methods approaching classical brute force calculations?. Hylleraas seminar 2019-09-27 - 2019-09-27 2019.

  • Isaksen, Geir Villy. Point charges.. KJE-3106 Biomolecular modelling 2019-03-18 - 2019-03-22 2019.

  • Isaksen, Geir Villy. Entropy Calculations in the PchB-catalyzed chorismate mutase reaction.. Uppsala Density Functional Theory meeting 2019-05-20 - 2019-05-22 2019.

  • Isaksen, Geir Villy; Åqvist, Johan; Brandsdal, Bjørn Olav. Computation of Enzyme Temperature Adaptation - Protein Surface Softness Regulates the Enthalpy-Entropy Balance.. ISQBP President’s meeting 2018 in Barcelona 2018-06-19 - 2018-06-21 2018.

  • Isaksen, Geir Villy. Empirical Valence Bond.. MOL910 - Biomolecular modelling 2018-03-19 - 2018-03-23 2018.

  • Isaksen, Geir Villy. SAM hydrolase (SVI-3) reaction mechanism. Wallenberg New Genes project meeting 2018-10-15 - 2018-10-16 2018.

  • Os, Vibeke; Isaksen, Geir Villy. Energiberegninger forklarer biologisk evolusjon. (Fulltekst: https://uit.no/nyheter/artikkel?p_document_id=424883 2015.

  • Isaksen, Geir Villy. Protein dynamics regulates enzyme enthalpy-entropy balance. 2015 ISBN 978-82-8236-178-1.

  • Isaksen, Geir Villy. Datasimuleringer baner vei for enzymdesign. Kjemi 2015; Volum 4. ISSN 0023-1983.s 4 - 7.

  • Isaksen, Geir Villy. Protein surface-softness is the origin of enzyme cold-adaptation.. Annual BioStruct conference 2013 2013-08-29 - 2013-09-01 2013.

  • Isaksen, Geir Villy; Isaksson, Johan; Svendsen, John Sigurd; Brandsdal, Bjørn Olav. Structural studies of small cationic antimicrobial peptides by NMR and computer simulations have facilitated a refined pharmacophore model able to predict activity versus Staphylococcus aureus. SMASH 2011 2011-09-18 - 2011-09-21 2011.

  • Isaksen, Geir Villy; Brandsdal, Bjørn Olav. Membrane interaction mechanism for small antimicrobial peptides. The 1st annual BioStruct conference 2010-08-26 - 2010-08-29 2010.

  • Isaksen, Geir Villy; Karstad, Rasmus Tørnes; Isaksson, Johan Mattias; Svenson, Johan; Svendsen, John Sigurd; Brandsdal, Bjørn Olav. Structure of short cationic antimicrobial peptides and their interactions with membranes as revealed by MD simulations. ISB Winter School 2010 2010-12-07 - 2010-12-10 2010.

  • Isaksen, Geir Villy. Membrane interaction mechanisms for small antimicrobial peptides.. 1st annual BioStruct Conference 2010-08-27 - 2010-08-29 2010.

  • Lund, Bjarte Aarmo; Isaksen, Geir Villy; Wilkins, Ryan Scott; Williamson, Adele K. The Bacillus pumilus chorismate mutase. NBS vintermøte 2020 2020-01-23 - 2020-01-26 2020.

  • Isaksen, Geir Villy. Computational Understanding of Biocatalytic Evolution to Extreme Environments. Forskeropphold 2019-02-05 - 2019-02-06 2019.

  • Isaksen, Geir Villy; Brandsdal, Bjørn Olav. Tromsø VR lab (forskningsdagene 2019). Forskningsdagene 2019 2019-09-19 - 2019-09-22 2019.

  • Isaksen, Geir Villy. CUBE3 - Computational Understanding of Biocatalytic Evolution to Extreme Environments. (https://site.uit.no/cube/) (Fulltekst: https://site.uit.no/cube/ (Omtale: https://site.uit.no/cube/) (Sammendrag: https://site.uit.no/cube/) (Prosjekt: https://site.uit.no/cube/) 2019.

  • Isaksen, Geir Villy. VR-teknologi og molekylær kjemi. 2019.

  • Isaksen, Geir Villy. The entropy challenge in enzyme-catalyzed reactions – are QM methods approaching classical brute force calculations?. Hylleraas seminar 2019-09-27 - 2019-09-27 2019.

  • Isaksen, Geir Villy. Point charges.. KJE-3106 Biomolecular modelling 2019-03-18 - 2019-03-22 2019.

  • Isaksen, Geir Villy. Entropy Calculations in the PchB-catalyzed chorismate mutase reaction.. Uppsala Density Functional Theory meeting 2019-05-20 - 2019-05-22 2019.

  • Isaksen, Geir Villy; Åqvist, Johan; Brandsdal, Bjørn Olav. Computation of Enzyme Temperature Adaptation - Protein Surface Softness Regulates the Enthalpy-Entropy Balance.. ISQBP President’s meeting 2018 in Barcelona 2018-06-19 - 2018-06-21 2018.

  • Isaksen, Geir Villy. Empirical Valence Bond.. MOL910 - Biomolecular modelling 2018-03-19 - 2018-03-23 2018.

  • Isaksen, Geir Villy. SAM hydrolase (SVI-3) reaction mechanism. Wallenberg New Genes project meeting 2018-10-15 - 2018-10-16 2018.

  • Os, Vibeke; Isaksen, Geir Villy. Energiberegninger forklarer biologisk evolusjon. (Fulltekst: https://uit.no/nyheter/artikkel?p_document_id=424883 2015.

  • Isaksen, Geir Villy. Protein dynamics regulates enzyme enthalpy-entropy balance. 2015 ISBN 978-82-8236-178-1.

  • Isaksen, Geir Villy. Datasimuleringer baner vei for enzymdesign. Kjemi 2015; Volum 4. ISSN 0023-1983.s 4 - 7.

  • Isaksen, Geir Villy. Protein surface-softness is the origin of enzyme cold-adaptation.. Annual BioStruct conference 2013 2013-08-29 - 2013-09-01 2013.

  • Isaksen, Geir Villy; Isaksson, Johan; Svendsen, John Sigurd; Brandsdal, Bjørn Olav. Structural studies of small cationic antimicrobial peptides by NMR and computer simulations have facilitated a refined pharmacophore model able to predict activity versus Staphylococcus aureus. SMASH 2011 2011-09-18 - 2011-09-21 2011.

  • Isaksen, Geir Villy; Brandsdal, Bjørn Olav. Membrane interaction mechanism for small antimicrobial peptides. The 1st annual BioStruct conference 2010-08-26 - 2010-08-29 2010.

  • Isaksen, Geir Villy; Karstad, Rasmus Tørnes; Isaksson, Johan Mattias; Svenson, Johan; Svendsen, John Sigurd; Brandsdal, Bjørn Olav. Structure of short cationic antimicrobial peptides and their interactions with membranes as revealed by MD simulations. ISB Winter School 2010 2010-12-07 - 2010-12-10 2010.

  • Isaksen, Geir Villy. Membrane interaction mechanisms for small antimicrobial peptides.. 1st annual BioStruct Conference 2010-08-27 - 2010-08-29 2010.

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