We all criticize, to at least some degree, publication metrics since they provide only a very simple-minded measure. But the fact remains that they are universally used in evaluations of grant and other applications, and more or less everyone checks them. Here is some data regarding our publications: The SoftSimu group was established in September 2000. By the end of 2013, the group had published over 150 papers with more than 4,700 citations (according to Web of Science and Scopus) of which 12 with more 100 citations. The SoftSimu H-index for the period of September 2000-end 2013 is 40, i10-index (papers with at least 10 citations): 111.

All citation data below is based on Web of Science and Scopus.

 


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2015


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  1. Lipid monolayer disruption caused by aggregated carbon nanoparticles, N. Nisoh, Mikko Karttunen, Luca Monticelli, Jirasak Wong-ekkabut, submitted.

  2. Hydroxyapatite Growth Inhibition Effect of Pellicle Statherin Peptides, Yizhi Xiao, Mikko Karttunen, Jari Jalkanen, Carolina Mussi,Yinyin Liao, Bernd Grohe, François Lagugné-Labarthet, and Walter L. Siqueira, submitted.

2014


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  1. Accelerating the Conformational Sampling of Intrinsically Disordered Proteins, Trang Nhu Do, Wing-Yiu Choy, and Mikko Karttunen, J. Chem. Theory and Comput. 10, 5081–5094 (2014). [online]
    Times cited: NA. Related: JPCB 2013, Sci Rep 2013, PLoS One 2012, JCTC 2012 PLoS One 2011

  2. Micelle fragmentation and wetting in confined flow, Mona Habibi, Colin Denniston and Mikko Karttunen, Europhys. Lett. 108, 28005 (2014). Editor's Choice article. [online, free access] [arxiv preprint]
    Times cited: NA. Related: PRL 2014, Soft Matter 2014, Soft Matter 2013, JCP 2011, JACS 2008

  3. Modeling the Behavior of Confined Colloidal Particles Under Shear Flow, Frances E. Mackay, Kyle Pastor, Mikko Karttunen, and Colin Denniston, Soft Matter 10, 8724-8730 (2014). [online] [arxiv preprint] [video]
    Times cited: NA. Related: PRL 2014, EPL 2014, Soft Matter 2013, JCP 2011

  4. Molecular Dynamics Simulations of DPPC/CTAB Monolayers at the Air/Water Interface, Bin Liu, Matthew I. Hoopes, and Mikko Karttunen, J. Phys. Chem. B 118, 11723-11737 (2014). [online] [Free parameters]
    Times cited: NA. Related: JPCB 2012, JPCB 2009, JPCB 2005, Langmuir 2003

  5. Oleic Acid Phase Behavior from Molecular Dynamics Simulations, J.J. Janke, W.F.D. Bennett, D.P. Tieleman, Langmuir 30, 10661-10667 (2014). [online]

  6. Dehydroergosterol as an analogue for cholesterol: Why it mimics cholesterol so well or does it?, Amir Mohsen Pourmousa, Tomasz Róg, Risto Mikkeli, Ilpo Vattulainen, Lucas M. Solanko, Daniel Wüstner, Nanna Holmgaard List, Jacob Kongsted, and Mikko Karttunen, J. Phys. Chem. B 118, 7345–7357 (2014). [online]
    Times cited: 3. Related: BBA 2009, JCP 2008, J. Pept. Sci 2008, JPCB 2007, JPCB 2006

  7. The importance of membrane defects - lessons from simulations, W.F. Bennett and D.P. Tieleman, Acc. Chem. Res. 47, 2244–2251 (2014) [online]
    Times cited: NA

  8. Long Molecular Dynamics Simulations of Intrinsically Disordered Proteins Reveal Preformed Structural Elements for Target Binding in Computational Approaches to Protein Dynamics - From Quantum to Coarse-Grained Methods (Taylor & Francis), M. Fuxreiter (Ed.). In press. Elio A. Cino, Mikko Karttunen, Wing-Yiu Choy.
    Times cited: NA. Related: JCTC 2014, JPCB 2013, Sci Rep 2013, PLoS One 2012, JCTC 2012, PLoS One 2011

  9. Stable Porphyrin-Phospholipid Doped Liposomes Permeabilized by Near Infrared Light, K. Carter, S. Shao, Matthew I. Hoopes, W. Song, H. Huang, G. Zhang, B. Asan, R.K. Pandey, B.A Pfeifer, J. Ortega, Mikko Karttunen, J.F Lovell, Nature Communications 5, 3546 (2014). [online] [Open Access] [Video 1] [Video 2]
    Highlighted: [Nanoballoons and Lasers: A New Cancer Fighter] [A fantastic voyage for chemotherapy drugs]
    Times cited: 4

  10. A new model for cell division and migration with spontaneous topology changes, Anna Mkrtchyan, J.A. Åström and Mikko Karttunen, Soft Matter 10, 4332-4339 (2014). [online]
    Times cited: NA. Related: PRE 2006

  11. Biopolymer filtration in corrugated nanochannels, Santtu T.T. Ollila, Colin Denniston, Mikko Karttunen and Tapio Ala-Nissila, Phys. Rev. Lett. 112, 118301 (2014). [online] [preprint]
    Times cited: 1. Related: Soft Matter 2014, EPL 2014, Soft Matter 2013, JCP 2011

  12. Characterization of the Immersion Properties of the Peripheral Membrane Anchor of the FATC Domain of the Kinase “Target of Rapamycin” by NMR, Oriented CD Spectroscopy, and MD Simulations, Lisa A. M. Sommer, J. Joel Janke, W. F. Drew Bennett, Jochen Bürck, Anne S. Ulrich, D. Peter Tieleman, and Sonja A. Dames, J. Phys. Chem. B 118, 4817 (2014). [online]
    Times cited: 0

  13. Crossovers in supercooled solvation water: Effects of hydrophilic & hydrophobic interactions, John T. Titantah and Mikko Karttunen, submitted. [arxiv preprint]
    Related: Sci Rep 2013, JACS 2012, JPCB 2009

  14. Hydrophobicity: Effect of density and order on water’s rotational slowing down, John T. Titantah and Mikko Karttunen, submitted
    Related: Sci Rep 2013, JACS 2012, JPCB 2009

  15. Neutron spectroscopic study of crystal field excitations in Tb2Ti2O7 and Tb2Sn2O7, J. Zhang, K. Fritsch, Z. Hao, B.V. Bagheri, M.J.P. Gingras, G.E. Granroth, P. Jiramongkolchai, R.J. Cava, and B.D. Gaulin, Phys. Rev. B 89, 134410 (2014) [online] [preprint]
    Times cited: 2

  16. Molecular dynamics simulations of lipid membranes under tension: Rupture and dynamic response, J.Y Xie, G.H. Ding, Mikko Karttunen, Biochim. Biophys. Acta (BBA Biomembranes) 1838, 994-1002 (2014). [on-line]
    Times cited: 1 Related: JPCB 2008 J Struct Biol 2007

  17. Molecular Dynamics Study of DNA Oligomers under Angled Pulling, A.M. Naserian-Nik, M. Tahani, and Mikko Karttunen, RSC Advances 4, 10751-10760 (2014). [on-line]
    Times cited: 0. Related: RSC Advances 2013

  18. In Situ Nanoparticle Size Measurements of Gas-Borne Silicon Nanoparticles by Time-Resolved Laser-Induced Incandescence, Tim A. Sipkens, R. Mansmann, Kyle J. Daun, N. Petermann, J.T. Titantah, Mikko Karttunen, H. Wiggers, T. Dreier, and C. Schulz, Appl. Phys. B. 116, 623-636 (2014). [on-line]
    Times cited: 6. Related: APB 2013, APB 2012

  19. Atomistic Simulations of Pore Formation and Closure in Lipid Bilayers, W. F. Drew Bennett, Nicolas Sapay, and D. Peter Tieleman, Biophys J. 106, 210-219 (2014) [on-line]
    Times cited: 1

  20. Melatonin directly interacts with cholesterol and alleviates cholesterol effects in dipalmitoylphosphatidylcholine monolayers, Y. Choi, S.J. Attwood, Matthew I. Hoopes, E. Drolle, Mikko Karttunen, Z. Leonenko, Soft Matter 10, 206-213 (2014). [on-line]
    Times cited: 1. Related: BBA 2013, PLoS One 2010, BBA 2009, JCP 2008, BJ 2007

  21. Classical Electrostatics for Biomolecular Simulations, Celeste Sagui, Andres G. Cisneros, Mikko Karttunen, Penguy Ren, Chemical Reviews 114, 779-814 (2014). [on-line]
    Times cited: 23. Related: Nature Nanotech. 2010, Curr. Top. Membr. 2008, Comput. Phys. Comm. 2007, JPCB 2004, BJ 2003, PRE 2003

2013


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  1. Phase transition and thermal order-by-disorder in the pyrochlore antiferromagnet Er2Ti2O7: A high-temperature series expansion study, J. Oitmaa, R.R.P. Singh, B. Javanparast, A.G.R. Day, B.V. Bagheri, and M.J.P. Gingras Phys. Rev. B 88, 220404 (2013). [on-line]
    Times cited: 6

  2. α-Helical structures drive early stages of self-assembly of amyloidogenic amyloid polypeptide aggregate formation in membranes, M. Pannuzzo, A. Raudino, D. Milardi, C. La Rosa, and Mikko Karttunen, Scientific Reports, 3, 2781 (2013). [on-line]
    Times cited: 6. Related: PCCP 2013, PCCP 2009

  3. Phase field crystal model for magneto-elesticity in isotropic ferromagnetic solids, Niloufar Faghihi, Nikolas Provatas, K.R. Elder, Martin Grant, and Mikko Karttunen, Phys. Rev. E 88, 032407 (2013) [on-line] [preprint]
    Times cited: 0. Related: PRE 2009, J. Phys: Conf. Series 2008, PRE 2006, PRL 1999

  4. Conformational biases of linear motifs, Elio A. Cino, Wing-Yiu Choy, Mikko Karttunen, J. Phys. Chem. B 117, 15943–15957 (2013). [on-line] [Video]
    Times cited: 1. Related: JCTC 2014, Sci Rep 2013, PLoS One 2012, JCTC 2012, PLoS One 2011

  5. Binding of disordered proteins to a protein hub, Elio A. Cino, R.C. Killoran, Mikko Karttunen, Wing-Yiu Choy, Scientific Reports 3, 2305 (2013). [on-line]
    Times cited: 5. Related: JCTC 2014, JPCB 2013, PLoS One 2012, JCTC 2012, PLoS One 2011

  6. Water dynamics: Relation between hydrogen bond bifurcations, molecular jumps, local density & hydrophobicity, John T. Titantah and Mikko Karttunen, Scientific Reports, 3, 2992 (2013). [on-line] [preprint] [video]
    Times cited: 2. Related: JACS 2012, JPCB 2009

  7. Effect of melatonin and cholesterol on the structure of DOPC and DPPC membranes, E. Drolle, N. Kučerka, Matthew I. Hoopes, Y.Choi, J. Katsaras, Mikko Karttunen, Z. Leonenko, BBA Biomembranes 1828, 2247-2254 (2013). [on-line]
    Times cited: 8. Related: Soft Matter 2014, PLoS One 2010, BBA 2009, JCP 2008, BJ 2007

  8. Molecular Dynamics Study of Oxidized Lipid Bilayers In NaCl Solution, Viwan Jarerattanachat, Mikko Karttunen, Jirasak Wong-ekkabut, J. Phys. Chem. B 117, 8490–8501 (2013) [on-line]
    Times cited: 5. Related: JPCB 2009

  9. Molecular dynamics studies of transportan interacting with a DPPC bilayer, Amir Mohsen Pourmousa, Jirasak Wong-ekkabut, M. Patra, and Mikko Karttunen, J. Phys. Chem. B 117, 230–241 (2013). [on-line] [video]
    Times cited: 6. Related: CPL 2013, BJ 2006

  10. Multiphase density functional theory parameterization of the Gupta potential for silver and gold, John T. Titantah and Mikko Karttunen, Eur. Phys. J. B 86, 288 (2013) [On-line] [Arxiv preprint]
    Times cited: 1

  11. Thermal Accommodation Coefficients for Laser-Induced Incandescence Sizing of Metal Nanoparticles in Monatomic Gases, Kyle J. Daun, Tim A. Sipkens, John T. Titantah and Mikko Karttunen, Appl. Phys. B 8, 409-420 (2013) [on-line]. [Erratum]
    Times cited: 1. Related: APB 2014, APB 2012

  12. Hydrodynamic Effects on Confined Polymers, Santtu T.T. Ollila, Colin Denniston, Mikko Karttunen and Tapio Ala-Nissila, Soft Matter 9, 3478-3487 (2013) [On-line] [Arxiv print]
    Times cited: 4 Related: PRL 2014, Soft Matter 2014, EPL 2014, JCP 2011

  13. Pulling of Double-Stranded DNA by Atomic Force Microscopy: A Simulation in Atomistic Details, A.M. Naserian-Nik, M. Tahani, Mikko Karttunen, RSC Advances 3, 10516-10528 (2013). [On-line]
    Times cited: 2. Related: RSC Advances 2014

  14. Analytical model and multiscale simulations of aggregation amyloid β peptide in lipid membranes: Toward a unifying description for conformational transitions, oligomers and membrane damage, Antonio Raudino, Danilo Milardi, Martina Pannuzzo, Mikko Karttunen and Carmelo La Rosa, Phys. Chem. Chem. Phys. 15, 8940-8951 (2013) [On-line]
    Times cited: 3. Related: Sci Rep 2014, PCCP 2009

  15. Early stages of interactions of cell-penetrating peptide penetratin with a DPPC bilayer, Amir Mohsen Pourmousa and Mikko Karttunen, Chemistry and Physics of Lipids 169, 85-94 (2013) [On-line] [Full length video] [Snapshot]
    Times cited: 5. Related: JPCB 2013, BJ 2006

  16. Classical Molecular Dynamics in a nutshell, Susanna Hug, Methods in Molecular Biology 924, 127-152 (2013). [on-line]
    Times cited: 1. Related: ChemRev 2014, JCTC 2012, JCTC 2012, Nat Nanot 2010, CTM 2008, CPC 2007, JCC 2004, BJ 2003

2012


  See also: 2014 | 2013 | 2012 | 2011 | 2010 | 2009 | 2008 | 2007 | 2006 | 2005 | 2004 | 2003 | 2002 | 2001 | Popular science | Theses  | Old | Top

  1. Effects of Molecular Crowding on the Dynamics of Intrinsically Disordered Proteins, Elio A. Cino, Mikko Karttunen, Wing-Yiu Choy, PLoS ONE 7 e49876 (2012). [on-line]
    Times cited: 21. Related: JCTC 2014, JPCB 2013, Sci Rep 2013, JCTC 2012, PLoS One 2011

  2. Comparison of secondary structure formation using 10 different force fields in microsecond molecular dynamics simulations, Elio A. Cino, Wing-Yiu Choy, Mikko Karttunen, J. Chem. Theory and Comput. 8, 2725-2740 (2012) [on-line] [video 1] [video 2] [Illustration 1] [Illustration 2]
    Times cited: 38. Related: ChemRev 2014, JCTC 2014, JCTC 2012, JPCB 2013, Sci Rep 2013, PLoS One 2012, PLoS One 2011

  3. Mimicking the biomolecular control of calcium oxalate monohydrate crystal growth: The effect of contiguous glutamic acids, B. Grohe, S. Hug, A. Langdon, J. Jalkanen, K.A. Rogers, H.A. Goldberg, Mikko Karttunen, G.K. Hunter, Langmuir 28, 12182-12190 (2012). [on-line]
    Times cited: 3. Related: Soft Matter 2012, CTO 2011, JACS 2011, Phys Proc 2010, Langmuir 2010, Biochem J 2010, PLoS 2010, CTO 2009, JACS 2007

  4. Assessment of common simulation protocols for simulations of nanopores, membrane proteins & channels, Jirasak Wong-ekkabut & Mikko Karttunen, J. Chem. Theory and Comput. 8, 2905-2911 (2012) [on-line] [video 1] [video 2] [video 3] [video 4]
    Times cited: 19. Related: ChemRev 2014, JCTC 2012, Nat Nanot 2010, CTM 2008

  5. Mechanism of Inhibition of Calcium Oxalate Crystal Growth by an Osteopontin Phosphopeptide, S. Hug, B. Grohe, J. Jalkanen, B. Chan, B. Galarreta, K. Vincent, F. Lagugne-Labarthet, G. Lajoie, H.A. Goldberg, Mikko Karttunen, G.K. Hunter, Soft Matter 8, 1226-1233 (2012) [on-line]
    Times cited: 8. Related: Langmuir 2012, CTO 2011, JACS 2011, Phys Proc 2010, Langmuir 2010, Biochem J 2010, PLoS 2010, CTO 2009, JACS 2007

  6. Combined depeletion and electrostatic forces in polymer-induced membrane adhesion. A theoretical model, A. Raudino, M. Pannuzzo, and Mikko Karttunen, J. Chem. Phys. 136, 055101 (2012) [on-line]
    Times cited: 6

  7. Long-time correlations and hydrophobe modified hydrogen bonding dynamics in hydrophobic hydration, J.T. Titantah, Mikko Karttunen, J. Am. Chem. Soc. 134, 9362-9368 (2012). [on-line] [video]
    Times cited: 14. Related: Sci Rep 2013, JPCB 2009

  8. Molecular Dynamics Simulation of Thermal Accommodation Coefficients for Time-Resolved Laser-Induced Incandescence Sizing of Nickel Nanoparticles, Kyle J. Daun, J.T. Titantah, Mikko Karttunen, Appl. Phys. B 107, 221-228 (2012). [On-line] [video]
    Times cited: 7. Related: APB 2014, APB 2013

  9. Stiffness transition in anisotropic fiber nets, J.A. Åström, S.P.B. Kumar, Mikko Karttunen, Physical Review E 86, 021922 (2012) [on-line]
    Times cited: 1. Related: Soft Matter 2010, Soft Matter 2009, PRE 2008

  10. Cationic DMPC/DOTAP Lipid Bilayers: Atomistic Insight for Structure and Dynamics, W. Zhao, A.A. Gurtovenko, Ilpo Vattulainen, Mikko Karttunen, J. Phys. Chem. B 116, 269-276 (2012) [on-line] [Free parameters] [video]
    Times cited: 10. Related: JPCB 2014, JPCB 2009, JPCB 2005, BJ 2004

  11. Prolyl Oligopeptidase with Covalently Bound Inhibitors:Molecular Dynamics and Crystallographic Study, K. Kaszuba, Tomasz Róg, R. Danne, P. Canning, V. Fulop, J-F. St. Pierre, A. Garcia-Horsman, P.T. Mannisto, Mikko Karttunen, J. Hokkanen, Alex Bunker, Biochimie 94, 1398-1411 (2012) [on-line] [PDB structures]
    Times cited: 8. Related: JCTC 2011, SQER 2009

  12. Molecular Dynamics Simulations of the Bacterial ABC Transporter SAV1866 in the Closed Form, K. Kaszuba, J-F. St. Pierre, Alex Bunker, Tomasz Róg, Mikko Karttunen, N. Mousseau, J.Phys. Chem. B 116, 2934-2942 (2012) [on-line] [video]
    Times cited: 12

2011:


  See also: 2014 | 2013 | 2012 | 2011 | 2010 | 2009 | 2008 | 2007 | 2006 | 2005 | 2004 | 2003 | 2002 | 2001 | Popular science | Theses  | Old | Top

  1. Microsecond Molecular Dynamics Simulations of Intrinsically Disordered Proteins Involved in the Oxidative Stress Response, Elio A. Cino, Jirasak Wong-ekkabut, Mikko Karttunen, Wing-Yiu Choy, PLoS One 6, e27371 (2011). [on-line] [Video 1] [Video 2]
    Times cited: 19. Related: JCTC 2014, JPCB 2013, Sci Rep 2013, PLoS One 2012, JCTC 2012

  2. Citrate Modulates Calcium Oxalate Crystal Growth by Face-Specific Interactions, B. Grohe, J. O'Young, A. Langdon, Mikko Karttunen, H.A. Goldberg, G.K. Hunter, Cells Tissues Organs 194, 176-181 (2011). [on-line]
    Times cited: 8. Related: Langmuir 2012, Soft Matter 2012, JACS 2011, Phys Proc 2010, Langmuir 2010, Biochem J 2010, PLoS 2010, CTO 2009, JACS 2007

  3. Matrix Gla Protein Inhibits Ectopic Calcification by a Direct Interaction with Hydroxyapatite Crystals, J. O'Young, Y. Liao, Y. Xiao, J. Jalkanen, G. Lajoie, Mikko Karttunen, H. Goldberg, G.K. Hunter, J. Am. Chem. Soc. 133, 18406-18412 (2011). [on-line]
    Times cited: 30. Related: Langmuir 2012, Soft Matter 2012, CTO 2011, Phys Proc 2010, Langmuir 2010, Biochem J 2010, PLoS 2010, CTO 2009, JACS 2007

  4. A molecular dynamics implementation of the 3D Mercedes-Benz water model, Teemu Hynninen, C.L. Dias, Anna Mkrtchyan, V. Heinonen, Mikko Karttunen, Adam S. Foster, Tapio Ala-Nissila, Computer Physics Communications 183, 363-369 (2011) [on-line] [Video 1] [Video 2] Free software (GPL) available: See CASHEW on this page.
    Times cited: 4. Related: JCP 2011, PRL 2010, JCP 2009

  5. Hydrophobic interactions in protein secondary structures, Teemu Hynninen, C.L. Dias, Mikko Karttunen, H.S. Chan, Phys Rev E 84, 041931 (2011). [on-line]
    Times cited: 11. Related: Sci Rep 2013, JACS 2012, Cryobiology 2010, Cryobiology 2010, PRL 2008

  6. Use of umbrella sampling to calculate the entrance/exit pathway for Z-pro-prolinal inhibitor in Prolyl Oligopeptidase, J.-F. St. Pierre, N. Mousseau, Tomasz Róg, Mikko Karttunen, Alex Bunker, J. Chem. Theory and Comput. 7, 1583-1594 (2011). [on-line] [Video]
    Times cited: 6. Related: Biochimie 2012 SQER 2009

  7. Simulations of micellization of sodium hexyl sulfate, Maria Sammalkorpi, S. Sanders, A. Panagiotopoulos, Mikko Karttunen, Mikko Haataja, J. Phys. Chem. B. 115, 1403-1410 (2011). [on-line]
    Times cited: 19. Related: JPCB 2009, JACS 2008, JPCB 2007

  8. Hydrophobicity within the 3D Mercedes-Benz model: Potential of Mean Force, C.L. Dias, Teemu Hynninen, Tapio Ala-Nissila, Adam S. Foster, and Mikko Karttunen, J. Chem. Phys. 134, 065106 (2011). [on-line]
    Times cited: 16. Related: Comput Phys Comm 2011, PRL 2010, JCP 2009

  9. Fluctuating lattice-Boltzmann model for complex fluids, Santtu T.T. Ollila, Colin Denniston, Mikko Karttunen, Tapio Ala-Nissila, J. Chem. Phys. 134, 064902 (2011). [on-line]
    Times cited: 12. Related: PRL 2014, Soft Matter 2014, EPL 2014, Soft Matter 2013

  10. A study of the surface structure of the PEGylated liposome in physiological conditions using all atom molecular dynamics simulation and Langmuir monolayer studies, M. Stepniewski, Marta Pasenkiewicz-Gierula, Tomasz Róg, R. Danne, A. Orlowski, Mikko Karttunen, A. Urtti, M. Yliperttula, E. Vuorimaa, Alex Bunker, Langmuir 27, 7788-7798 (2011). [on-line] [Video 1] [Video 2] [Video 3] [Video 4]
    Times cited: 25.

  11. Low-density lipoprotein: Structure, dynamics, interactions of ApoB-100 with lipids, T. Murtola, T. Vuorela, M.T. Hyvönen, S.J. Marrink, Mikko Karttunen, Ilpo Vattulainen, Soft Matter 7, 8135-8141 (2011). [on-line]
    Times cited: 16. Related: PLoS Comp Biol 2010, BJ 2008

2010:

  See also: 2014 | 2013 | 2012 | 2011 | 2010 | 2009 | 2008 | 2007 | 2006 | 2005 | 2004 | 2003 | 2002 | 2001 | Popular science | Theses  | Old | Top

  1. Static charges cannot drive a continuous flow of water molecules through a carbon nanotube, Jirasak Wong-ekkabut, Markus S. Miettinen, C.L. Dias, Mikko Karttunen, Nature Nanotechnology 5, 555-557 (2010). [on-line] [Video 1] [Video 2]
    Times cited: 46. Related: ChemRev 2014, JCTC 2012, JCTC 2012, CTM 2008, BJ 2003

  2. Myosin motor mediated contraction is enough to produce cytokinesis in the absence of polymerization, J.A. Åström, S. von Alfthan, S.P.B. Kumar, Mikko Karttunen, Soft Matter 6, 5375-5381 (2010). [on-line]
    Times cited: 2. Related: PRE 2012, Soft Matter 2009, PRE 2008

  3. Effects of the lipid bilayer phase state on the water membrane interface, M. Stepniewski, Alex Bunker, Marta Pasenkiewicz-Gierula, Mikko Karttunen, Tomasz Róg, J. Phys. Chem. B 114, 11784-11792 (2010). [on-line]
    Times cited: 25

  4. Ab initio simulations of peptide-mineral interactions, S. Hug, G.K. Hunter, H. Goldberg, Mikko Karttunen, Physics Procedia 4, 51-60 (2010). [on-line] [Video 1] [Video 2]
    Times cited: 1. Related: Langmuir 2012, Soft Matter 2012, CTO 2011, JACS 2011, Langmuir 2010, Biochem J 2010, PLoS 2010, CTO 2009, JACS 2007

  5. Cutting Ice: Regelation at the Nanoscale, Teemu Hynninen, V. Heinonen, C.L. Dias, Mikko Karttunen, Adam S. Foster, Tapio Ala-Nissila, Phys. Rev. Lett. 105, 086102 (2010) [on-line] [Video 1] [Video 2]
    [Highlighted in Physics Focus]
    Times cited: 5. Related: JCP 2011, Comput Phys Comm 2011, JCP 2009

  6. Role of Lipids in Spheroidal High Density Lipoproteins, T. Vuorela, A. Catte, P.S. Niemelä, A. Hall, M.T. Hyvönen, S.-J. Marrink, Mikko Karttunen, Ilpo Vattulainen, PLoS Comput. Biol. 6, e1000964 (2010) [on-line]
    Times cited: 31. Related: Soft Matter 2011, BJ 2008

  7. The flexible polyelectrolyte hypothesis: a new paradigm of protein-crystal interaction in biomineralization, G.K. Hunter, J. O'Young, B. Grohe, Mikko Karttunen and H.A. Goldberg, Langmuir 26, 18639-18646 (2010). [on-line]
    Times cited: 45. Related: Langmuir 2012, Soft Matter 2012, CTO 2011, JACS 2011, Phys Proc 2010, Biochem J 2010, PLoS 2010, CTO 2009, JACS 2007

  8. Phosphorylation of Ser136 is Critical for Potent Bone Sialoprotein-Mediated Nucleation of Hydroxyapatite Crystals, G.S. Baht, J. O'Young, A. Borovino, C.E. Tye, Mikko Karttunen, G.K. Hunter, and H.A. Goldberg, Biochemical Journal 428, 385-395 (2010). [on-line]
    Times cited: 16. Related: Langmuir 2012, Soft Matter 2012, CTO 2011, JACS 2011, Phys Proc 2010, Langmuir 2010, PLoS 2010, CTO 2009, JACS 2007

  9. The Role of Glycolipids in Lipid Rafts: A View through Atomistic Molecular Dynamics Simulations with Galactosylceramide, A. Hall, Tomasz Róg, Mikko Karttunen, Ilpo Vattulainen, J. Phys. Chem. B 114, 7797-7807 (2010). [on-line]
    Times cited: 26. Related: JPCB 2007, CMBL 2005

  10. Roles of Electrostatics and Conformation in Protein-Crystal Interactions, P.V. Azzopardi, J. O'Young, G. Lajoie, Mikko Karttunen, H.A. Goldberg and G.K. Hunter, PLoS One 5, e9330 (2010). [on-line]
    Times cited: 26. Related: Langmuir 2012, Soft Matter 2012, CTO 2011, JACS 2011, Phys Proc 2010, Langmuir 2010, Biochem J 2010, CTO 2009, JACS 2007

  11. The hydrophobic effect and its role in cold denaturation, C.L. Dias, Tapio Ala-Nissila, Jirasak Wong-ekkabut, I. Vattulainen, Mikko Karttunen, Cryobiology 60, 91-99 (2010). [on-line]
    Times cited: 37. Related: Sci Rep 2013, JACS 2012, PRE 2011, Cryobiology 2010, PRL 2008

  12. Reply to the Comment by Graziano on "The hydrophobic effect and its role in cold denaturation", C.L. Dias, Tapio Ala-Nissila, Jirasak Wong-ekkabut, Ilpo Vattulainen, Mikko Karttunen, Cryobiology 60, 356-357 (2010). [on-line]
    Times cited: 1. Related: Sci Rep 2013, JACS 2012, PRE 2011, Cryobiology 2010, Cryobiology 2010, PRL 2008

  13. Molecular Dynamics Simulations Reveal Fundamental Role of Water As Factor Determining Affinity of Binding of beta-Blocker Nebivolol to beta(2)-Adrenergic Receptor, K. Kaszuba, Tomasz Róg, K. Bryl, Ilpo Vattulainen, and Mikko Karttunen, J. Phys. Chem. B 114, 8374-8366 (2010). [on-line] [video 1] [video 2]
    Times cited: 19

  14. Cholesterol Off-Plane Methyl Groups Induce Formation of Cholesterol-Rich Domains and Quasi-Long-Range Lateral Order in Cholesterol/Phospholipid Membranes , H. Martinez-Seara, Tomasz Róg, Mikko Karttunen, Ilpo Vattulainen, and R. Reigada, PLoS ONE 5 e11162 (2010). [on-line]
    Times cited: 39.

2009:

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  1. Molecular Dynamics Study of Prolyl Oligopeptidase with Inhibitor in Binding Cavity, K. Kaszuba, Tomasz Róg, J.-F. St. Pierre, P.T. Männistö, Mikko Karttunen, Alex Bunker, SAR and QSAR in Env. Res. 20, 595-609 (2009). [on-line]
    Times cited: 9. Related: Biochimie 2012, JCTC 2011

  2. Mitochondrial Membranes with Mono- and Divalent Salt: Changes Induced by Salt Ions on Structure and Dynamics. S. Poyry, T. Róg, Mikko Karttunen, Ilpo Vattulainen. J. Phys. Chem. B 113, 15513-15521 (2009). [on-line]
    Times cited: 19

  3. Ion Dynamics in Cationic Lipid Bilayer Systems in Saline Solutions, Markus S. Miettinen, A.A. Gurtovenko, Ilpo Vattulainen, and Mikko Karttunen, J. Phys. Chem. B 113, 9226-9234 (2009). [on-line]
    Times cited: 23. Related: JPCB 2014, JPCB 2012, JPCB 2005, BJ 2004

  4. Three-dimensional "Mercedes-Benz" model for water, C.L. Dias, Tapio Ala-Nissila, M. Grant, and Mikko Karttunen, J. Chem. Phys. 131, 054505 (2009). [on-line]
    Times cited: 27. Related: Comput Phys Comm 2011, JCP 2011, PRL 2010

  5. Ionic surfactant aggregates in saline solutions: Sodium dodecyl sulphate (SDS) in the presence of excess NaCl or CaCl2, Maria Sammalkorpi, Mikko Karttunen, Mikko Haataja, J. Phys. Chem. B 113, 5863-5870 (2009). [on-line]
    Times cited: 50. Related: EPL 2014, JPCB 2011, JACS 2008, JPCB 2007

  6. Lipid domain morphologies in phosphatidylcholine-ceramide monolayers, Mikko Karttunen, Mikko Haataja, M. Saily, Ilpo Vattulainen, and J.M. Holopainen, Langmuir 25, 4595-4600 (2009). [on-line]
    Times cited: 16

  7. Systematic coarse-graining from structure using internal states: application to phospholipid / cholesterol bilayer, T. Murtola, Mikko Karttunen, Ilpo Vattulainen J. Chem. Phys. 131, 055101 (2009). [on-line]
    Times cited: 23

  8. Aster formation and rupture transition in semi-flexible fiber networks with mobile cross-linkers, J.A. Åström, P.B.S. Kumar, Mikko Karttunen, Soft Matter 5, 2869-2874 (2009). [on-line]
    Times cited: 10. Related: PRE 2012, Soft Matter 2010, PRE 2008

  9. Multiscale modeling of emergent materials: biological and soft matter, T. Murtola, Alex Bunker, Ilpo Vattulainen, M. Deserno, and Mikko Karttunen, PCCP 11, 1869-1892 (2009). [on-line] [Extra picture]
    Times cited: 107. Related: PCCP 2013, Sci Rep 2013, BJ 2008, JCP 2009, PRE 2007, JCP 2007, JCP 2004, CPC 2003, Soft Mater 2003

  10. Nonlinear Driven Response of a Phase-Field Crystal in a Periodic Pinning Potential, C. V. Achim, J.A.P. Ramos, Mikko Karttunen, K.R. Elder, E. Granato, Tapio Ala-Nissila and S.C. Ying, Phys. Rev. E 79, 011606 (2009). [on-line]
    Times cited: 18. Related: PRE 2013, J. Phys: Conf. Series 2008, PRE 2006, PRL 1999

  11. Role of cardiolipins in the inner mitochondrial membrane: insight gained through atom-scale simulations Tomasz Róg, H. Martinez-Seara, N. Munck, M. Oresic, Mikko Karttunen, Ilpo Vattulainen, J. Phys. Chem. B 113, 3413-3422 (2009). [on-line]
    Times cited: 32

  12. Ordering effects of cholesterol and its analogues, Tomasz Róg, Marta Pasenkiewicz-Gierula, Ilpo Vattulainen, Mikko Karttunen, Biochim. Biophys. Acta 1788, 97-121 (2009). [on-line]
    Times cited: 144. Related: JPCB 2014, Soft Matter 2014, POne 2010, JCP 2008, JPCB 2008, BJ 2008, JPCB 2008, BJ 2007, JSB 2007, JBC 2006, JCP 2004

  13. Water isotope effect on the bilayer properties: a molecular dynamics simulation study Tomasz Róg, K. Murzyn, J. Milhaud, Mikko Karttunen, and Marta Pasenkiewicz-Gierula, J. Phys. Chem. B 113, 2378-2387 (2009). [on-line]
    Times cited: 16. Related: Sci Rep 2013, JACS 2012

  14. Phosphorylation of osteopontin peptides mediates adsorption to and incorporation into calcium oxalate crystals , J. O'Young, S. Chirico, N. Al Tarhuni, B. Grohe, Mikko Karttunen, H.A. Goldberg and G.K. Hunter Cells, Tissues, Organs 189, 51-55 (2009). [On-line] [PDF]
    Times cited: 10. Related: Langmuir 2012, Soft Matter 2012, CTO 2011, JACS 2011, Phys Proc 2010, Langmuir 2010, Biochem J 2010, PLoS 2010, JACS 2007

  15. Why the sn-2 chain of monounsaturated glycerol-phospholipids is usually unsaturated while the sn-1 chain is saturated? Studies of SOPC and OSPC membranes with and without cholesterol H. Martinez-Seara, Tomasz Róg, Mikko Karttunen, Ilpo Vattulainen, R. Reigada. J. Phys. Chem. B 113, 8347-8356 (2009). [on-line]
    Times cited: 8

2008:

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  1. Agent-Based Modelling of Glucose Transport R.D. van Gaalen and Mikko Karttunen JCIS 1, 41-49 (2008). [PDF]
    Times cited: NA

  2. Micelle fission through surface instability and formation of an interdigitating stalk, Maria Sammalkorpi, Mikko Karttunen, Mikko Haataja, J. Am. Chem. Soc. 130, 17977-17980 (2008). [On-line] [Video 1] [Video 2]
    Times cited: 29. Related: EPL 2014, JPCB 2011, JPCB 2009, JPCB 2007

  3. Dynamical Scaling Exponents for Polymer Translocation through a Nanopore K. Luo, Santtu T.T. Ollila, I. Huopaniemi, Tapio Ala-Nissila, P. Pomorski, Mikko Karttunen, S.C. Ying, A. Bhattacharya Phys. Rev. E. (Rapid Comm.) 78, 050901(R) (2008). [On-line] [Video]
    Times cited: 74

  4. Systematic approach to coarse-graining of molecular descriptions and interactions with applications to lipid membranes , T. Murtola, Ilpo Vattulainen, Mikko Karttunen, in "Coarse-Graining of Condensed Phase and Biomolecular Systems", G. Voth (Ed.), CRC Press (Boca Raton, FL), 2008.
    Times cited: NA

  5. Comparison of cholesterol and its direct precursors along the biosynthetic pathway: Effects of cholesterol, desmosterol and 7-dehydrocholesterol on saturated and unsaturated lipid bilayers, Tomasz Róg, Ilpo Vattulainen, M. Jansen, E. Ikonen, and Mikko Karttunen, J. Chem. Phys. 129, 154508 (2008). [on-line]
    Times cited: 21

  6. Electrostatics in biomolecular simulations: Where are we now and where are we heading , Mikko Karttunen, Jorg Rottler, Ilpo Vattulainen, and Celeste Sagui, Current Topics in Membranes, 60 49-89 (2008). [on-line]
    Times cited: 55. Related: Chem Rev 2014, Nature Nanotech. 2010, Comput. Phys. Comm. 2007, JPCB 2004, BJ 2003

  7. Strain hardening in dense actin networks J.A. Åström, P.B.S. Kumar, Ilpo Vattulainen, Mikko Karttunen, Phys. Rev. E 77, 051913 [On-line]
    Times cited: 28. Related: PRE 2012, Soft Matter 2010, Soft Matter 2009,

  8. Influence of cis double bond parameterization on lipid membrane properties: How seemingly insignificant details in force change even qualitative trends, H. Martinez-Seara, Tomasz Róg, Mikko Karttunen, R. Reigada, Ilpo Vattulainen , J. Phys. Chem. 129, 105103 (2008). [On-line]
    Times cited: 33

  9. Nano-sized fullerene clusters permeate lipid membranes, Jirasak Wong-ekkabut, S. Baoukina, W. Triampo, I.-M. Tang, D.P. Tieleman, and Luca Monticelli, Nature Nanotechnology 3, 363-368 (2008). [on-line]
    Times cited: 149

  10. Point defects in pure amorphous silicon and their role in structural relaxation: A tight-binding molecular-dynamics study, X. Urli, C.L. Dias, L.J. Lewis, and S. Roorda Phys. Rev. B 77, 155204 (2008). [On-line]
    Times cited: 10

  11. Microscopic mechanism for cold denaturation , C.L. Dias, Tapio Ala-Nissila, Mikko Karttunen, Ilpo Vattulainen, and M. Grant Phys. Rev. Lett. 100, 118101 (2008). [On-line] Selected for the April 1, 2008 issue of Virtual Journal of Biological Physics Research.
    Times cited: 53. Related: Sci Rep 2013, JACS 2012, PRE 2011, Cryobiology 2010, Cryobiology 2010

  12. Non-polar interactions between trans-membrane helical EGF peptide and phosphatidylcholines, sphingomyelins and cholesterol. Molecular dynamics simulation studies , Tomasz Róg, K. Murzyn, Mikko Karttunen, and Marta Pasenkiewicz-Gierula, J. Peptide Sci. 14 374-382 (2008). [On-line]
    Times cited: 8. Related: JPCB 2014, BBA 2009,

  13. Structure of spheroidal HDL particles revealed by combined atomistic and coarse grained simulations, A. Catte, J.C. Patterson, D. Bashtovyy, M.K. Jones, F. Gu, L. Li, A. Rampioni, D. Sengupta, T. Vuorela, P. Niemela, Mikko Karttunen, S.-J. Marrink, Ilpo Vattulainen, and J.P. Segrest, Biophys. J. 94, 2306-2319 (2008). [On-line]
    Times cited: 53. Related: Soft Matter 2011, PLoS Comp Biol 2010

  14. Extensive Molecular Dynamics simulations of the enzyme Catechol-O-Methyl Transferase: Methodological issues, A. Bunker, P.T. Männistö, J.-F. St. Pierre, Tomasz Róg, P. Pomorski, and Mikko Karttunen, SAR and QSAR in Env. Res. 19, 179-189 (2008). [On-line] [Video 1] [Video 2] [Snapshot]
    Times cited: 6

  15. Interplay of Unsaturated Phospholipids and Cholesterol in Membranes: Effect of Double Bond Position, H. Martinez-Seara, Tomasz Róg, Marta Pasenkiewicz-Gierula, Ilpo Vattulainen, Mikko Karttunen, and R. Reigada, Biophys. J. 95, 3295-3305 (2008). [On-line]
    Times cited: 51

  16. Phase diagram of pinned lattices in the phase field crystal model, C.V. Achim, Mikko Karttunen, K.R. Elder, E. Granato, Tapio Ala-Nissila, S.C. Ying J. Phys.: Conf. Series 100, 072001 (2008). [On-line]
    Times cited: 8. Related: PRE 2013, PRE 2009, PRE 2006, PRL 1999

  17. Lateral diffusion in lipid membranes through collective flows, Emma Falck, Tomasz Róg, Mikko Karttunen, Ilpo Vattulainen J. Am. Chem. Soc. 130, 44-45 (2008). [On-line] [Video]
    Times cited: 68. Related: BJ 2005, BJ 2004

  18. Significance of cholesterol methyl groups, S. Pöyry, Tomasz Róg, Mikko Karttunen, Ilpo Vattulainen, J. Phys. Chem. B 112, 2922-2929, 2008. [On-line]
    Times cited: 22

  19. Replacing the cholesterol hydroxyl group by the ketone group facilitates sterol flip-flop and promotes membrane fluidity, Tomasz Róg, L.M. Stimson, Marta Pasenkiewicz-Gierula, Ilpo Vattulainen, Mikko Karttunen, J. Phys. Chem. B 112 1946-1952 (2008). [On-line] [Video]
    Times cited: 34. Related: BBA 2008 BJ 2007,

  20. Influence of Ethanol on Lipid Membranes: From Lateral Pressure Profiles to Dynamics and Partitioning, Emma Terämä, O.H.S. Ollilla, E. Salonen, A. Rowat, C. Trandum, P. Westh, M. Patra, Mikko Karttunen, Ilpo Vattulainen, J. Phys. Chem. B 112, 4131-4139 (2008). [On-line] [Video 1] [Video 2]
    Times cited: 52. Related: BJ 2006, Fluid Phase Eq. 2004

  21. Role of phosphatidylglycerols in the stability of bacterial membranes , W. Zhao, Tomasz Róg, A.A. Gurtovenko, Ilpo Vattulainen, Mikko Karttunen, Biochimie 90, 930-938 (2008). [On-line]
    Times cited: 32

2007:


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  1. Control of calcium oxalate crystal growth by face-specific adsorption of an osteopontin phosphopeptide. B. Grohe, J. O'Young, A. Ionescu, G. Lajoie, K.A. Rogers, Mikko Karttunen, H.A. Goldberg and G.K. Hunter, J. Am. Chem. Soc. 129, 14946-14951, 2007. [On-line] [Video 1] [Video 2] [Video 3] [Video 4] [Video 5]
    Times cited: 62. Related: Langmuir 2012, Soft Matter 2012, CTO 2011, JACS 2011, Phys Proc 2010, Langmuir 2010, Biochem J 2010, PLoS 2010, CTO 2009

  2. Stearic acid spin labels in lipid bilayers: Insight through atomistic simulations , Tomasz Róg, L. Stimson, L. Dong, A. Wisniewska, M. Dutka, and Mikko Karttunen, J. Phys. Chem. B 111, 12447-12453 (2007). [On-line]
    Times cited: 14

  3. Glycolipid membranes through atomistic simulations: Effect of glucose and galactose head groups on lipid bilayer properties , Tomasz Róg, Ilpo Vattulainen, A. Bunker, Mikko Karttunen, J. Phys. Chem. B 111, 10146-10154 (2007) [On-line]
    Times cited: 27. Related: JPCB 2010, CMBL 2005

  4. Enhanced dielectrophoresis of nanocolloids by dimer formation, E. Salonen, Emma Terama, Ilpo Vattulainen, Mikko Karttunen, Europhys. Lett. 78 48004 (2007). [On-line] [preprint]
    Times cited: 12 Related: EPJE 2005, PRE 2005, PRE 2004, PRE 2004, PRE 2003, PRE 2003, PRE 2003

  5. Structural properties of ionic detergent aggregates: A large-scale molecular dynamics study of sodium dodecyl sulfate, Maria Sammalkorpi, Mikko Karttunen, Mikko Haataja, J. Phys. Chem. B 111, 11722-11733 (2007). [Online]
    Times cited: 66. Related: JPCB 2011, JPCB 2009, JACS 2008,

  6. What happens if cholesterol is made smoother: Importance of methyl substituents in cholesterol ring structure on phosphatidylcholinesterol interaction, Tomasz Róg, Marta Pasenkiewicz-Gierula, Ilpo Vattulainen, and Mikko Karttunen, Biophys. J. 92 3346-3357 (2007). [Online]
    Times cited: 43

  7. Effect of double bond position on lipid bilayer properties: Insight through atomistic simulations, H. Martinez-Seara, Tomasz Róg, Marta Pasenkiewicz-Gierula, Ilpo Vattulainen, Mikko Karttunen, and R. Reigada, J. Phys. Chem. B 111 11162-11168 (2007) [online]
    Times cited: 32

  8. Reptational dynamics in dissipative particle simulations of polymer melts, P. Nikunen, Ilpo Vattulainen, Mikko Karttunen, Phys. Rev. E. 75, 036713 (2007). [online] [preprint]. Selected for the April 1, 2007 issue of Virtual Journal of Biological Physics Research.
    Times cited: 42. Related: PCCP 2009, CPC 2003, Soft Mater 2003, JCP 2002, PRE 2000

  9. Atomic-scale structure and electrostatics of anionic POPG lipid bilayers with Na+ counterions W. Zhao, Tomasz Róg, A.A. Gurtovenko, Ilpo Vattulainen, and Mikko Karttunen, Biophys. J. 92, 1114-1124 (2007). [Online]
    Times cited: 103

  10. Insight into the Putative Specific Interactions between Cholesterol, Sphingomyelin and Palmitoyl-Oleoyl Phosphatidylcholine J. Aittoniemi, P.S. Niemela, M.T. Hyvonen, Mikko Karttunen, Ilpo Vattulainen, Biophys. J. 92, 1125-1137 (2007). [Online]
    Times cited: 78

  11. Role of sterol type on lateral pressure profiles of lipid membranes affecting membrane protein functionality: Comparison between cholesterol, desmosterol, 7-dehydrocholesterol and ketosterol, S. Ollila, Tomasz Róg, Mikko Karttunen, Ilpo Vattulainen J. Structural Biology, 159, 311-323 (2007). [Online]
    Times cited: 67

  12. Assessing the nature of lipid raft membranes, P.S. Niemela, S. Ollila, M.T. Hyvonen, Mikko Karttunen, Ilpo Vattulainen PLoS Computational Biology 3, e34 (2007). [Online] NOTE: Free on-line access!
    Highlighted:[Life on a raft floating on a sea of maple syrup]

    Times cited: 157

  13. Coarse-Grained Model for Phospholipid/Cholesterol Bilayer Employing Inverse Monte Carlo with Thermodynamic Constraints. T. Murtola, Emma Falck, Mikko Karttunen, and Ilpo Vattulainen. J. Chem. Phys. 126, 075101 (2007). Selected for the March 1, 2007 issue of Virtual Journal of Biological Physics Research [Online]
    Times cited: 27.

  14. Long-range interactions & parallel scalability in molecular simulations, M. Patra, M.T. Hyvönen, Emma Falck, M. Sabouri-Ghomi, Ilpo Vattulainen, Mikko Karttunen, Computer Physics Comm. 176, 14-22 (2007). [Online] [ cond-mat/0410210]
    Times cited: 29

2006:


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  1. Transient Ordered Domains in Pure Phospholipid Bilayers T. Murtola, Tomasz Róg, Emma Falck, Mikko Karttunen, Ilpo Vattulainen Phys. Rev. Lett. 97, 238102 (2006). [Online] Selected for the December 15, 2006 issue of the Virtual Journal of Biological Physics Research Selected for the December 18, 2006 issue of the Virtual Journal of Nanoscale Science and Technology
    Times cited: 28

  2. Sterol tilt -- major determinant of sterol ordering capability in lipid membranes, J. Aittoniemi, Tomasz Róg, P. Niemela, Marta Pasenkiewicz-Gierula, Ilpo Vattulainen, Mikko Karttunen, J. Phys. Chem. B (Letters) 110, 25562-25564 (2006). [Online]
    Times cited: 61

  3. The influence of lateral and terminal substitution on the structure of a liquid crystal dendrimer: A computer simulation study M.R. Wilson, L.M. Stimson and J. M. Ilnytskyi, Liquid Crystals 33, 1167-1175 (2006)
    Times cited: 5

  4. Phase Diagram and Commensurate-Incommensurate Transitions in the Phase Field Crystal Model with an External Pinning Potential C.V. Achim, Mikko Karttunen, K.R. Elder, E. Granato, Tapio Ala-Nissila, S.C. Ying, Phys. Rev. E 74, 021104 (2006). [Online]
    Times cited: 42. Related: PRE 2013, PRE 2009, J. Phys: Conf. Series 2008, PRL 1999

  5. Dynamics of water at membrane surfaces effect of headgroup structure , K. Murzyn, W. Zhao, Mikko Karttunen, M. Kurdziel, and Tomasz Róg BioInterphases 1, 98-105 (2006). [Online]
    Times cited: 47

  6. Influence of pyrene-labeling on fluid lipid membrane J. Repakova, J. M. Holopainen, Mikko Karttunen, and Ilpo Vattulainen J. Phys. Chem. B 110, 15403-15410 (2006). [Online]
    Times cited: 45

  7. Interaction of fusidic acid with lipid membranes: Implications to the mechanism of antibiotic activity Emma Falck, J.T. Hautala, Mikko Karttunen, P.K.J. Kinnunen, M. Patra, H. Saaren-Seppala, Ilpo Vattulainen, S.K. Wiedmer, and J.M. Holopainen Biophys. J. 91 1787-1799 (2006) [Online]
    Times cited: 13. Related: CPL 2013, JPCB 2013

  8. Ab initio band bending, metal-induced gap states, and Schottky barriers of a carbon and a boron nitride nanotube device K. Odbadrakh, P. Pomorski, and C. Roland. Phys. Rev. B 73, 233402 (2006). [Online]
    Times cited: 12

  9. Cholesterol-sphingomyelin interactions: A molecular dynamics simulation study, Tomasz Róg and Marta Pasenkiewicz-Gierula, Biophys. J. 91 3756-3767 (2006). [online].
    Times cited: 44

  10. Cholesterol effects on the unsaturated phosphatidylcholine bilayer: a molecular dynamics simulation study, Tomasz Róg, Marta Pasenkiewicz-Gierula, Biochimie 88, 449-460 (2006). [online]
    Times cited: 34

  11. Cell aggregation: Packing soft grains, J.A. Åström and Mikko Karttunen, Phys. Rev. E 73 062301 (2006). [Online] [Video]
    Times cited: 3. Related: Soft Matter 2014

  12. Molecular dynamics study of charged dendrimers in salt-free solution: Effect of counterions A.A. Gurtovenko, S.V. Lyulin, Mikko Karttunen, Ilpo Vattulainen J. Chem. Phys. 124, 094904 (2006). [preprint] [Online] Selected for the March 15, 2006 issue (vol. 11, issue 6) of the Virtual Journal of Biological Physics Research, and selected for the March 20, 2006 issue of the Virtual Journal of Nanoscale Science and Technology
    Times cited: 54

  13. Under the influence of alcohol: The effect of ethanol and methanol on lipid bilayers M. Patra, E. Salonen, Emma Terama, Ilpo Vattulainen, R. Faller, B.W. Lee, J. Holopainen, and Mikko Karttunen Biophys. J. 90, 1121-1135 (2006). [cond-mat/0408122] [Online] [Video 1] [Video 2]
    Times cited: 119. Related: JPCB 2008, Fluid Phase Eq. 2004

  14. Significance of Sterol Structural Specificity: Desmosterol cannot replace cholesterol in lipid rafts, S. Vainio, M. Jansen, M. Koivusalo, Tomasz Róg, Mikko Karttunen, Ilpo Vattulainen, and E. Ikonen, J. Biol. Chem. 281, 348-355, (2006) [online]
    Times cited: 75

  15. Influence of the disulfide bond configuration on the dynamics of the spin label attached to cytochrome c, K. Murzyn, Tomasz Róg, W. Blicharski, M. Dutka, J. Pyka, S. Szytula, W. Froncisz, Proteins 62, 1088-1100 (2006). online]
    Times cited: 18

  16. Effective ac response of graded colloidal suspensions, En-Bo Wei, L. Dong and K. W. Yu, J. Appl. Phys. 99, 054101 (2006).
    Times cited: 12

  17. Giant enhancement of optical nonlinearity in multilayer metallic films, J. P. Huang, L. Dong and K. W. Yu, J. Appl. Phys. 99, 053503 (2006).
    Times cited: 5

  18. Stencils with isoptropic discretisation error for differential operators, Michael Patra and Mikko Karttunen, Num. Meth. Partial Diff. Eqns. 22, 936-953 (2006) [Online] [Preprint] [Related Mathematica file] [Illustration]
    Times cited: 26

2005:


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  1. Coarse-grained simulation studies of a liquid crystal dendrimer: towards computational predictions of nanoscale structure through microphase separation, Zak E. Hughes, Mark R. Wilson and Lorna M. Stimson Soft Matter 1, 436-443 (2005) [Online]
    Times cited: 17

  2. Molecular dynamics simulations of side chain liquid crystal polymer molecules in isotropic and liquid-crystalline melts, Lorna M. Stimson and Mark R. Wilson J. Chem. Phys 123 034908 (2005) [Online] Selected for the August 1, 2005 issue of the Virtual Journal of Biological Physics Research
    Times cited: 22

  3. Dielectrophoresis of nanocolloids: a molecular dynamics study, E. Salonen, Emma Terama, Ilpo Vattulainen and Mikko Karttunen, Eur. Phys. J. E 18, 133-142 (2005) [Online] [preprint]
    Times cited: 16. Related: EPL 2007, PRE 2005, PRE 2004, PRE 2004, PRE 2003, PRE 2003, PRE 2003

  4. Reply to "Comment on the use of the method of images for calculating electromagnetic responses of interacting spheres", J.P. Huang, K.W. Yu, G.Q. Gu, Mikko Karttunen, and L. Dong Phys. Rev. E 72, 023402 (2005) [Online] Selected for the August 15, 2005 issue of the Virtual Journal of Biological Physics Research
    Times cited: 1

  5. Response to the Comment by Almeida et al.: Free Area Theories for Lipid Bilayers - Predictive or Not? Emma Falck, M. Patra, Mikko Karttunen, M. T. Hyvonen, and Ilpo Vattulainen Biophys. J. 89 745-752 (2005) [Online]
    Times cited: 21. Related: JACS 2008, BJ 2004

  6. Exploring the effect of Xenon on biomembranes, Lorna M. Stimson, Ilpo Vattulainen, Tomasz Róg, and Mikko Karttunen. Cell. Mol. Biol. Lett. 10 563-565 (2005). [Online] [Video]
    Times cited: 8

  7. Modeling glycolipids: Take one, Tomasz Róg, Ilpo Vattulainen and Mikko Karttunen, Cell. Mol. Biol. Lett. 10 625-630 (2005). [Online]
    Times cited: 17. Related: JPCB 2010, JPCB 2007

  8. Effect of Monovalent Salt on Cationic Lipid Membranes , A. A. Gurtovenko, Markus S. Miettinen, Mikko Karttunen, and Ilpo Vattulainen, J. Phys. Chem. B 109, 21126-21134 (2005). [Online]
    Times cited: 41. Related: JPCB 2014, JPCB 2012, JPCB 2009, BJ 2004

  9. Multipole polarizability of a graded spherical particle, L. Dong, J.P. Huang, K.W. Yu and G.Q. Gu, Eur. Phys. J. B 48, 439-444 (2005).
    Times cited: 2

  10. Free Volume Properties of Sphingomyelin, DMPC, DPPC, and PLPC Bilayers, M. Kupiainen, Emma Falck, S. Ollila, P. Niemelä, A. A. Gurtovenko, M. T. Hyvönen, M. Patra, Mikko Karttunen, and Ilpo Vattulainen, Journal of Computational and Theoretical Nanoscience 2, 401-413 (2005). [PDF file]
    Times cited: 46

  11. Spectral representation of the effective dielectric constant of graded composites , Lei Dong, Mikko Karttunen, and K. W. Yu, Phys. Rev. E 72, 016613 (2005). [Online] [preprint]
    Times cited: 10. Related: EPL 2007, EPJE 2005, PRE 2004, PRE 2004, PRE 2003, PRE 2003, PRE 2003

2004:

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  1. Crumpling of a stiff tethered membrane, J.A. Åström, Jussi Timonen, and Mikko Karttunen, Phys. Rev. Lett. 93, 244301 (2004). [Online] [cond-mat/0309506]
    Times cited: 28

  2. Impact of Cholesterol on Voids in Phospholipid Membranes, Emma Falck, Michael Patra, Mikko Karttunen, Marja T. Hyvönen, and Ilpo Vattulainen, J. Chem. Phys. 121, 12676 (2004). [ cond-mat/0408380] [online]. Selected for the December 15, 2004 issue of the Virtual Journal of Biological Physics Research
    Times cited: 50

  3. Optical nonlinearity enhancement of graded metal-dielectric composite films Ji-Ping Huang, L. Dong, and Kin Wah Yu Europhys. Lett. 67, 854-858 (2004).
    Times cited: 10

  4. Morphological transitions and bistability in Turing systems, Teemu Leppänen, Mikko Karttunen, Rafael A. Barrio, and Kimmo Kaski, Phys. Rev. E 70, 066202 (2004). [Preprint] [online] [Turing movies]
    Times cited: 13. Related: Braz J Phys 2004, InterJournal, Int J Mod Phys B 2003, Prog Theor Phys 2003, Physica D 2002

  5. Novel Methods in Soft Matter Simulations, Mikko Karttunen, Ilpo Vattulainen, and Ari Lukkarinen (Eds.) Springer-Verlag, Lecture Notes in Physics series (2004) [Contents of the book] [SoftSimu2002]
    Times cited: 120+

  6. Lessons of Slicing Membranes: Interplay of Packing, Free Area, and Lateral Diffusion in Phospholipid/Cholesterol Bilayers, Emma Falck, Michael Patra, Mikko Karttunen, Marja T. Hyvönen, and Ilpo Vattulainen, Biophys. J. 87, 1076-1091 (2004). [Online] [cond-mat/0402290]. Selected in Sep. 2004 issue of Molecular Modeling & Computational Chemistry (MMCC)
    Times cited: 164. Related: JACS 2008, BJ 2005

  7. Structural effects of small molecules on phospholipid bilayers investigated by molecular simulations, B.W. Lee, R. Faller, A.K. Sum, Ilpo Vattulainen, M. Patra, and Mikko Karttunen Fluid Phase Equilibria 225, 63-68 (2004) [online] [preprint] [Video]
    Times cited: 43. Related: JPCB 2008, BJ 2006

  8. Coarse-Grained Model for Phospholipid/Cholesterol Bilayer Teemu Murtola, Emma Falck, Michael Patra, Mikko Karttunen, Ilpo Vattulainen J. Chem. Phys.121 9156-9165 (2004). [cond-mat/0406764] [online] Selected for the November 1, 2004 issue of the Virtual Journal of Biological Physics Research
    Times cited: 86

  9. Many-body dipole-induced dipole model for electrorheological fluids Ji-Ping Huang and Kin Wah Yu Chinese Physics 13, 1065-05 (2004).
    Times cited: 2

  10. Electrokinetic behavior of two touching inhomogeneous biological cells and colloidal particles: Effects of multipolar interactions, J.P. Huang, Mikko Karttunen, K.W. Yu, L. Dong, and G.Q. Gu Phys. Rev. E 69, 051402 (2004). [cond-mat/0306271] [online]. Selected for the June 1, 2004 issue of the Virtual Journal of Biological Physics Research
    Times cited: 20. Related: EPL 2007, EPJE 2005, PRE 2005, PRE 2004, PRE 2003, PRE 2003, PRE 2003

  11. Turing systems as models of complex pattern formation, Teemu Leppänen, Mikko Karttunen, Kimmo Kaski, and Rafael A. Barrio, Braz. J. Phys. 34, 368-372 (2004). [online] [Turing movies]
    Times cited: 11. Related: PRE 2004, InterJournal, Int J Mod Phys B 2003, Prog Theor Phys 2003, Physica D 2002

  12. Spatio-temporal dynamics in a Turing model, T. Leppänen, Mikko Karttunen, Rafael A. Barrio, and Kimmo Kaski, InterJournal, Section: Complex Systems, Article number: 874 [online] [Print] [Turing movies]
    Times cited: NA. Related: PRE 2004, Braz J Phys 2004, Int J Mod Phys B 2003, Prog Theor Phys 2003, Physica D 2002

  13. Dielectric response of graded spherical particles of anisotropic materials, L. Dong, J.P. Huang, K.W. Yu, and G.Q. Gu, J. Appl. Phys. 95, 621-624 (2004). [online]
    Times cited: 29

  14. Anomalously slow phase transitions in self-gravitating systems, Iaroslav Ispolatov and Mikko Karttunen, Phys. Rev. E 70, 026102 (2004). [cond-mat/0403097] [online]
    Times cited: 12. Related: PRE 2003, arxiv 2003

  15. Nonlinear alternating current responses of dipolar fluids, J.P. Huang, K.W. Yu, and Mikko Karttunen, Phys. Rev. E 70 011403 (2004). [online] [cond-mat/0403019]
    Times cited: 2. Related: EPJE 2005, PRE 2005, PRE 2004, PRE 2003, PRE 2003, PRE 2003

  16. Modeling of biologically motivated soft matter systems, Ilpo Vattulainen and Mikko Karttunen, Handbook of Theoretical and Computational Nanotechnology, edited by M. Rieth and W. Schommers (American Scientific Publishers) [PDF]
    Times cited: 6

  17. Systematic comparison of force fields for microscopic simulations of NaCl in aqueous solutions: Diffusion, free energy of hydration and structural properties, Michael Patra and Mikko Karttunen, J. Comp. Chem 25, 678-689 (2004). [physics/0211059] [Online] [All RDFs from ion simulations]. Selected in Apr. 2004 issue of Molecular Modeling & Computational Chemistry (MMCC)
    Times cited: 136.

  18. Cationic DMPC/DMTAP Lipid Bilayers: Molecular Dynamics Study, A.A. Gurtovenko, Michael Patra, Mikko Karttunen, and Ilpo Vattulainen, Biophys. J. 86, 3461-3472 (2004). [online] [cond-mat/0312400] [Download equilibrium configuration and parameters].
    Selected in July 2004 issue of Molecular Modeling & Computational Chemistry (MMCC)
    Times cited: 111. Related: JPCB 2014, JPCB 2012, JPCB 2009, JPCB 2005,

  19. Lipid bilayers driven to a wrong lane in molecular dynamics simulations by truncation of long-range electrostatic interactions, Michael Patra, Mikko Karttunen, Marja T. Hyvönen, Emma Falck, and Ilpo Vattulainen, J. Phys. Chem. B 108, 4485-4494 (2004). [Online] [Download equilibrium configuration]
    Times cited: 155. Related: Chem Rev 2014, JCTC 2012, Nat Nanotech 2010, Curr Top Membr 2008, CPC 2007, BJ 2003

  20. The theory of Turing pattern formation Teemu Leppänen to appear in Current Topics in Physics (Imperial College Press), 2004. [preprint]
    Times cited: NA. Related: PRE 2004, Braz J Phys 2004, InterJournal, Int J Mod Phys B 2003, Prog Theor Phys 2003, Physica D 2002

2003:


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  1. Dimensionality effects in Turing pattern formation, Teemu Leppänen, Mikko Karttunen, Kimmo Kaski, and Rafael A. Barrio, Int. J. Mod. Phys. B 17, 5541-5553 (2003). [online] [cond-mat/0306121] [Turing movies]
    Times cited: 6. Related: PRE 2004, Braz J Phys 2004, InterJournal, Prog Theor Phys 2003, Physica D 2002

  2. The effect of noise on Turing patterns, Teemu Leppänen, Mikko Karttunen, Rafael A. Barrio, and Kimmo Kaski, Prog. Theor. Phys. (suppl.) 150, 367-370 (2003). [Online] [Turing movies] [Video]
    Times cited: 6. Related: PRE 2004, Braz J Phys 2004, InterJournal, Int J Mod Phys B 2003, Physica D 2002

  3. Comment on "Microcanonical Mean Field Thermodynamics of Self-Gravitating and Rotating systems", Iaroslav Ispolatov and Mikko Karttunen, [Preprint]
    Related: PRE 2004, PRE 2003

  4. Electrorotation in graded colloidal suspensions, J.P. Huang, K.W. Yu, G.Q. Gu and Mikko Karttunen, Phys. Rev. E 67, 051405 (2003). [Online] [arxiv]. Selected for the June 1, 2003 issue of the Virtual Journal of Biological Physics Research
    Times cited: 71. Related: EPL 2007, EPJE 2005, PRE 2005, PRE 2004, PRE 2003, PRE 2003,

  5. Collapses and explosions in self-gravitating systems, Iaroslav Ispolatov and Mikko Karttunen Phys. Rev. E 68, 036117 (2003). [Online] [Preprint]
    Times cited: 16. Related: PRE 2004, arxiv 2003

  6. Molecular dynamics simulations of lipid bilayers: Major artifacts due to truncating electrostatic interactions Michael Patra, Mikko Karttunen, Marja T. Hyvönen, Emma Falck, Peter Lindqvist, and Ilpo Vattulainen Biophys. J. 84, 3636-3645 (2003). [Online] [arxiv] [Download equilibrium configurations]. Selected in July 2003 issue of Molecular Modeling & Computational Chemistry (MMCC)
    Times cited: 268. Related: Chem Rev 2014, JCTC 2012, Nat Nanot 2010, Curr Top Membr 2008, CPC 2007, JPCB 2004

  7. Characterization of Sphingosine-Phosphatidylcholine Monolayers: Effects of DNA, V. Matti J. Säily, Juha-Matti Alakoskela, Samppa J. Ryhänen, Mikko Karttunen, and Paavo K.J. Kinnunen Langmuir 19, 8956-8963 (2003) [Online]
    Times cited: 19. Related: JPCB 2014

  8. How would you integrate the equations of motion in dissipative particle dynamics simulations?, Petri Nikunen, Mikko Karttunen, and Ilpo Vattulainen Comp. Phys. Comm. 153, 407-423 (2003). [Online] [Preprint] [DPD movies]
    Times cited: 117. Related: PCCP 2009, PRE 2007, Soft Mater 2003, JCP 2002, PRE 2000

  9. Dielectrophoresis of charged colloidal suspensions, J.P. Huang, Mikko Karttunen, K. W. Yu, and L. Dong Phys. Rev. E 67, 021403 (2003) [Online] [Preprint]. Selected for the Mar. 1, 2003 issue of the Virtual Journal of Biological Physics Research
    Times cited: 24. Related: EPL 2007, EPJE 2005, PRE 2005, PRE 2004, PRE 2004, PRE 2003, PRE 2003

  10. Stability of charge inversion, Thomson problem and application to electrophoresis, Michael Patra, Marco Patriarca, and Mikko Karttunen Phys. Rev. E 67, 031402 (2003) [Online] [Preprint]. Selected for the Apr. 1, 2003 issue of the Virtual Journal of Biological Physics Research
    Times cited: 16. Related: Chem Rev 2014 EPL 2007, EPJE 2005, PRE 2005, PRE 2004, PRE 2003, PRE 2003

  11. Decay Rate Distributions of Disordered Slabs and Application to Random Lasers, M. Patra Phys. Rev. E 67, 016603 (2003) [Online] [Preprint]
    Times cited: 35

  12. On coarse-graining by the inverse Monte Carlo method: Dissipative Particle Dynamics simulations made to a precise tool in soft matter modeling, A.P. Lyubartsev, Mikko Karttunen, Ilpo Vattulainen, and A. Laaksonen, Soft Materials 1, 121-137 (2003). [Online] [Preprint]
    Times cited: 53. Related: PCCP 2009, PRE 2007, CPC 2003, JCP 2002, PRE 2000

2002:


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  1. Integration schemes for dissipative particle dynamics simulations: From softly interacting systems towards hybrid models, Ilpo Vattulainen, Mikko Karttunen, G. Besold, and J. Polson, J. Chem. Phys., 116, pp. 3967-3979 (2002) [Online] [arxiv] [DPD movie 1] [DPD movie 2] [DPD movie 3: Liposome formation]
    Times cited: 114. Related: PCCP 2009, PRE 2007, CPC 2003, Soft Mater 2003, PRE 2000

  2. A new dimension to Turing patterns, T. Leppänen, Mikko Karttunen, Kimmo Kaski, Rafael A. Barrio, and L. Zhang, Physica D 168-169C, 35-44 (2002). [online] [arxiv] [Turing movies] [Video 1] [Video 2] [Video 3: Gray-Scott bubbles] [Gray-Scott stripes]
    Times cited: 16. Related: PRE 2004, Braz J Phys 2004, InterJournal, Int J Mod Phys B 2003, Prog Theor Phys 2003

  3. Theory for the photon statistics of random lasers, M. Patra, [ Phys. Rev. A, vol. 65, 043809 (2002)]
    Times cited: 31

  4. Instabilities and resistance fluctuations in thin accelerated superconducting rings, Mikko Karttunen, K.R. Elder, Martin B. Tarlie, Martin Grant, Phys. Rev. E 66, 026115 (2002) [online] [arxiv] [Movies of superconducting rings].
    Selected for the September 1, 2002 issue of the Virtual Journal of Applications of Superconductivity
    Times cited: 4

  5. Computational modeling of DNA-cationic lipid complexation, Mikko Karttunen, A.L. Pakkanen, P.K.J. Kinnunen, and Kimmo Kaski, Cell. Mol. Biol. Lett., 7, 238 (2002).
    Times cited: 2

  6. Effects of quenched impurities on diffusion, spreading and ordering of O/W(110), P. Nikunen, Ilpo Vattulainen, and Tapio Ala-Nissila, [ J. Chem. Phys., 117, pp. 6757-6765 (2002)]
    Times cited: 6

2001:


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  1. From biomembranes to cationic liposomes. Int'l conference and summer school. Technical Report B26, ISBN 951-22-5429-8, Helsinki University of Technology, Lab. of Computational Engineering, Helsinki/Espoo, August 2001. Mikko Karttunen and Ilpo Vattulainen and Ari Lukkarinen (Eds.).

Popular science, interviews, non peer reviewed articles, etc.


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  1. Applied math rubs up against biology Western News, Nov. 16, 2006.

  2. Biologisen fysiikan tutkimus kärkkyy maailman kärkeen (Biological physics aiming to the top). Lue artikkeli Tekniikka ja Taloudesta, Feb. 26, 2004.

  3. Biologisen fysiikan tutkijat mallintavat soluja tietokoneen avulla. interview of Mikko Karttunen and Ilpo Vattulainen in Polysteekki 2/2004, pp. 6-8. (in Finnish)

  4. Biologisten systeemien mallinntaminen. Modeling biological systems, Mikko Karttunen and Ilpo Vattulainen Tietoyhteys 2/2004, pp. 20-22. (in Finnish)

  5. Tiedetorstai: Viinaa solukalvolla, TiedeTorstai - tietoa tekniikan tutkimuksesta kerran kuussa Booze on cellular membranes - computer simulations of alcohols on cellular membranes, Mikko Karttunen and Ilpo Vattulainen TiedeTorstai May 2004. (in Finnish)

  6. Matemaatikko luonnonilmiöiden jäljillä, T. Leppänen and K. Kaski, to appear in Arkhimedes 2/2004 (in Finnish), PDF.

  7. Matemaatikko selätti seepran raidat, Teemu Leppänen and Kimmo Kaski, Tiede 1/2004 (in Finnish).

  8. Radio interview of Mikko Karttunen and Ilpo Vattulainen, in the Finnish Broadcasting Company's (YLE Radio 1) program ``Radiaattori'' May 7 (2003) at 10:03 am - 10.43 am. The program covers topics related to natural sciences and technology, and the interview focused on the interplay of physics and biology

  9. Fysiikka kohtaa biologian -- Biomateriaalien teoria ja mallinnus, Ilpo Vattulainen & Mikko Karttunen, Tieteen Päivät 2003. (Physics meets biology -- a pedestrian approach to theory and modeling of biomaterials, National Science Days, 2003). Tieteessä Tapahtuu, 7, 2003 [PDF file in Finnish here.]

  10. Conference report: SoftSimu2002 - Novel Methods in Soft Matter Simulations, Mikko Karttunen, Ilpo Vattulainen, and Ari Lukkarinen, [Appl. Rheol. 12 (4), 200-201 (2002).] SoftSimu2002 Web site: www.softsimu.org/softsimu2002

Theses


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  1. Mona Habibi, A Molecular Simulations Study on Micelle Fragmentation and Wetting in Nano-confined Channels, PhD thesis, January 2014.

  2. Anna Mkrtchyan, A Single Cell Based Model for Cell Divisions with Spontaneous Topology Changes, PhD thesis, December 2013.

  3. Ali Madani, Modeling and Analysis of the Buckling Phenomena in the Homogeneous and Heterogeneous Biomembranes, MASc thesis, July 2013.

  4. Elio A. Cino, Experimental and computational analysis of the structure and dynamics of intrinsically disordered proteins, PhD thesis, Nov 2012.

  5. Alex Marshall, Molecular Dynamics Studies of Water Flow in Carbon Nanotubes, MSc thesis, Aug 2012.

  6. Niloufar Faghihi, Phase Field Crystal Approach to the Solidification of Ferromagnetic Materials, PhD thesis, July 2012.

  7. Susanna Hug, Molecular Dynamics Simulations of Peptide-Mineral Interactions, PhD thesis, April 2012.

  8. Amir Mohsen Pourmousa, Molecular Dynamics Studies of Interactions of Phospholipid membarens with Dehydroergosterol and Penetrating Peptides, PhD thesis, December 2011.

  9. Sepideh Soltani, Molecular Dynamics Analysis of the Behaviour of Prolyl Oligopeptidase (POP) in the Presence of Z-Pro-Prolinal Inhibitor, MSc thesis, December 2011.

  10. Markus S. Miettinen, Computational Modeling of Cationic Lipid Bilayers in Saline Solutions, PhD thesis, June 2010.

  11. Lei Dong, Dielectric properties of colloidal suspensions, PhD thesis, Jan. 2009

  12. Wei Zhao, Molecular modeling of charged membrane systems PhD thesis, Nov. 2006

  13. Petri Nikunen, Studies of surface diffusion and dissipative particle dynamics, Mar. 2006, PhD thesis.

  14. Markus S. Miettinen, From molten globule to swollen coil: Simulations of a lone polymer chain in an explicit solvent, MSc thesis, Nov. 2004.

  15. Teemu Leppänen, Computational studies of pattern formation in Turing systems, PhD thesis, Nov. 2004.

  16. Teemu Leppänen, Spatial pattern formation in Turing systems, Dec. 2001, MSc thesis.

Selected older articles:

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  1. Molecular dynamics of a microscopic droplet on a solid surface, Jouko A. Nieminen, Douglas B. Abraham, Mikko Karttunen, Kimmo Kaski, Phys. Rev. Lett. 69, 124-127 (1992) [Online]

  2. Fracture in mesoscopic disordered systems, Mikko Karttunen, K.J. Niskanen, Kimmo Kaski, Phys. Rev. B 49, 9453-9459 (1994) [Online]

  3. Residual Stresses in Plastic Random Systems, M.J. Alava, Mikko Karttunen, K.J. Niskanen, Europhys. Lett. 32, 143-148 (1995). [Online]

  4. The Internet Pilot to Physics: An Open Information System for Physics Research and Education, Mikko Karttunen, K. Holmlund, G. Nowotny, Int. J. Mod. Phys. C 8, 3-117 (1997). [Online]

  5. Nucleation, growth, and scaling in slow combustion, Mikko Karttunen, Nikolas Provatas, Tapio Ala-Nissila, Martin Grant, J. Stat. Phys. 90,1401-1411 (1998). [arxiv] [Online]

  6. Defects, Order, and Hysteresis in Driven Charge-Density Waves, Mikko Karttunen, Mikko Haataja, K. R. Elder, and Martin Grant, Phys. Rev. Lett., vol. 83, pp. 3518-3521 (1999) [Online] [arxiv] CDW movies
    Related: PRE 2013, PRE 2009, J. Phys: Conf. Series 2008, PRE 2006

  7. Towards better integrators for dissipative particle dynamics simulations, Gerhard Besold, Ilpo Vattulainen, Mikko Karttunen, and James M. Polson, Phys. Rev. E, vol. 63, pp. R7611-R7614 (2000) [Online] [arxiv] DPD movies
    Related: PCCP 2009, PRE 2007, CPC 2003, Soft Mater 2003, JCP 2002,

  8. Density profile evolution and nonequilibrium effects in partial and full spreading measurements of surface diffusion, Petri Nikunen, Ilpo Vattulainen, and Tapio Ala-Nissila, J. Chem. Phys., 114, pp. 6335-6342 (2001) [online]