Helgi I. Ingolfsson

Contact information

Lawrence Livermore National Laboratory
7000 East Avenue, L-367
Livermore, CA 94550

Bulding 242, Room 2312
email: ingolfsson1@llnl.gov
phone: 925 424 4194
 

Education/Experience

Postdoc, Biophysics / Molecular dynamics, 2011-2016
University of Groningen, Groningen, the Netherlands

Postdoc, Biophysics / Electrophysiology, 2010-2011
Weill Cornell Medical College, New York, NY

Ph.D., Computational Biology and Medicine, 2010
Weill Cornell Medical College, New York, NY

M.S., Computer Science, 2005
Cornell University, Ithaca, NY

Software engineer, 2001-2003
deCODE Genetics, Reykjavik, Iceland

B.S., Computer Science, 2002
University of Iceland, Reykjavik, Iceland

Research

My research is primarily focused on the lipid organization of cellular membranes and their perturbation by small molecules. I am interested in membrane protein functional regulation by their lipid environment and how drugs/amphiphiles can change bilayer properties and, therefore, indirectly alter protein function. To address these questions I have used a combination of experimental and computational methods, utilizing atomistic, coarse-grained and multiscale molecular dynamics methods. Recently, I have predominantly focused on the coarse-grained Martini model: improving the model, contributing to membrane building tools, extending the Martini lipidome, and modeling biologically realistic membrane compositions.

Selected Publications

Melo M.N., C. Arnarez, H. Sikkema, N. Kumar, M. Walko, H.J.C. Berendsen, A. Kocer, S.J. Marrink and H.I. Ingólfsson. 2017. High-throughput simulations reveal membrane-mediated effects of alcohols on MscL gating. JACS, Just Accepted, doi 10.1021/jacs.6b11091.

Venable R.M., H.I. Ingólfsson, M.G. Lerner, B.S. Perrin Jr, B.A Camley, S.J. Marrink, F.L.H. Brown and R.W. Pastor. 2017. Lipid and Peptide Diffusion in Bilayers: The Saffman-Delbrück Model and Periodic Boundary Conditions. J. Phys. Chem. B, Just Accepted, doi 10.1021/acs.jpcb.6b09111.

Ingólfsson H.I., C. Arnarez, X. Periole and S.J. Marrink. 2016. Computational 'microscopy' of cellular membranes. JCS, 129:257–268, doi 10.1242/jcs.176040.

Qi Y., H.I. Ingólfsson, X. Cheng, J. Lee, S.J. Marrink and W. Im. 2015. CHARMM-GUI Martini Maker for coarse-grained simulations with the Martini force field. JCTC, 11:4486–4494, doi: 10.1021/acs.jctc.5b00513.

Uusitalo J.J., H.I. Ingólfsson, P. Akhshi, D.P. Tieleman and S.J. Marrink. 2015. Martini coarse-grained force field: extension to DNA. JCTC, 11:3932–3945, doi: 10.1021/acs.jctc.5b00286.

Wassenaar T.A.§, H.I. Ingólfsson§, R.A. Böckmann, D.P. Tieleman and S.J. Marrink. 2015. Computational lipidomics with insane: a versatile tool for generating custom membranes for molecular simulations. JCTC, 11:2144-2155, doi: 10.1021/acs.jctc.5b00209. §Co-first authors.

Arnarez C.§, J.J. Uusitalo§, M.F. Masman, H.I. Ingólfsson, D.H. de Jong, M.N. Melo, X. Periole, A.H. de Vries and S.J. Marrink. 2015. Dry Martini, a coarse-grained force field for lipid membrane simulations with implicit solvent. JCTC, 11:260-275, doi: 10.1021/ct500477k. §Co-first authors.

Konijnenberg A., D. Yilmaz, H.I. Ingólfsson, A. Dimitrova, S.J. Marrink, A. Koçer and F. Sobott. 2014. Global structural changes of an ion channel during its gating are followed by ion mobility mass spectrometry. PNAS, 111:17170-17175, doi: 10.1073/pnas.1413118111.

Ingólfsson H.I., M.N. Melo, F. van Eerden, C. Arnarez, C.A. Lopez, T.A. Wassenaar, X. Periole, A.H. de Vries, D.P. Tieleman and S.J. Marrink. 2014. Lipid organization of the plasma membrane. JACS, 136:14554-14559, doi: 10.1021/ja507832e.

Ingólfsson H.I., P. Thakur, K.F. Herold, E.A. Hobart, N.B. Ramsey, X. Periole, D.H. de Jong, M. Zwama, D. Yilmaz, K. Hall, T. Maretzky, H.C. Hemmings Jr., C. Blobel, S.J. Marrink, A. Koçer, J.T. Sack and O.S. Andersen. 2014. Phytochemicals perturb membranes and promiscuously alter protein function. ACS Chem. Biol., 9:1788-1798, doi: 10.1021/cb500086e.

Ingólfsson H.I., C.A. Lopez, J.J. Uusitalo, D.H. de Jong, S.M. Gopal, X. Periole and S.J. Marrink. 2014. The power of coarse-graining in biomolecular simulations. WIREs Comput. Mol. Sci., 4:225–248, doi: 10.1002/wcms.1169.

Wassenaar T.A.§, H.I. Ingólfsson§, M. Prieß, S.J. Marrink and L.V. Schäfer. 2013. Mixing MARTINI: electrostatic coupling in hybrid atomistic–coarse-grained biomolecular simulations. J. Phys. Chem. B, 117:3516–3530, doi: 10.1021/jp311533p. §Co-first authors.

Ingólfsson H.I. and O.S. Andersen. 2011. Alcohol effects on lipid bilayer properties. Biophys. J., 101:847-855, doi: 10.1016/j.bpj.2011.07.013

Ingólfsson H.I. and O.S. Andersen. 2010. Screening for small molecules’ bilayer-modifying potential using a gramicidin-based fluorescence assay. Assay Drug Dev. Technol., 8:427-436, doi: 10.1089/adt.2009.0250.

Lundbæk J.A., S.A. Collingwood, H.I. Ingólfsson, R. Kapoor and O.S. Andersen. 2010. Lipid bilayer regulation of membrane protein function: gramicidin channels as molecular force probes. J. R. Soc. Interface, 7:373-395, doi: 10.1098/rsif.2009.0443.

Ingólfsson H.I., R.E. Koeppe II and O.S. Andersen. 2007. Curcumin is a modulator of bilayer material properties. Biochemistry, 45:10384-10391, doi: 10.1021/bi701013n.

 

For a full publication list see my google Scholar profile.