Journal Articles

Khalilian, H, Sarabadani, J, Ala-Nissila, T (2023) Polymer translocation in an environment of active rods, Physical Review Research, 5(2), 023107, DOI: 10.1103/physrevresearch.5.023107.

Vahid, H, Scacchi, A, Sammalkorpi, M, Ala-Nissila, T (2023) Interactions between Rigid Polyelectrolytes Mediated by Ordering and Orientation of Multivalent Nonspherical Ions in Salt Solutions, Physical Review Letters, 130(15), 158202, ISSN: 0031-9007. DOI: 10.1103/physrevlett.130.158202.

Yang, X, Buyukdagli, S, Scacchi, A, Sammalkorpi, M, Ala-Nissila, T (2023) Theoretical and computational analysis of the electrophoretic polymer mobility inversion induced by charge correlations, Physical Review E, 107(3), 034503, ISSN: 2470-0045. DOI: 10.1103/physreve.107.034503.

Elder, KR, Huang, Z-F, Ala-Nissila, T (2023) Moiré patterns and inversion boundaries in graphene/hexagonal boron nitride bilayers, Physical Review Materials, 7(2), 024003, DOI: 10.1103/physrevmaterials.7.024003.

Wang, Y, Fan, Z, Qian, P, Caro, MA, Ala-Nissila, T (2023) Quantum-corrected thickness-dependent thermal conductivity in amorphous silicon predicted by machine learning molecular dynamics simulations, Physical Review B, 107(5), 054303, ISSN: 2469-9950. DOI: 10.1103/physrevb.107.054303.

Granato, E, Elder, KR, Ying, SC, Ala-Nissila, T (2023) Dynamics of fluctuations and thermal buckling in graphene from a phase-field crystal model, Physical Review B, 107(3), 035428, ISSN: 2469-9950. DOI: 10.1103/physrevb.107.035428.

Thakore, V, Ala-Nissila, T, Karttunen, M (2022) Temperature-resilient anapole modes associated with TE polarization in semiconductor nanowires, Scientific Reports, 12, 21345, DOI: 10.1038/s41598-022-25289-w.

Heydari, S, Huang, Z, Hiraoka, T, de León Chávez, AP, Ala-Nissila, T, Leskelä, L, Kivelä, M, Saramäki, J (2022) Estimating inter-regional mobility during disruption: Comparing and combining different data sources, Travel Behaviour and Society, 31, pp.93-105, ISSN: 2214-367X. DOI: 10.1016/j.tbs.2022.11.005.

Ying, P, Liang, T, Xu, K, Xu, J, Fan, Z, Ala-Nissila, T, Zhong, Z (2022) Variable thermal transport in black, blue, and violet phosphorene from extensive atomistic simulations with a neuroevolution potential, International Journal of Heat and Mass Transfer, 202, 123681, ISSN: 0017-9310. DOI: 10.1016/j.ijheatmasstransfer.2022.123681.

Wang, Y, Fan, Z, Qian, P, Ala-Nissila, T, Caro, MA (2022) Erratum: "Structure and Pore Size Distribution in Nanoporous Carbon" (Chemistry of Materials (2022) 34:2 (617-628) DOI: 10.1021/acs.chemmater.1c03279), Chemistry of Materials, 34(19), p.9009, ISSN: 0897-4756. DOI: 10.1021/acs.chemmater.2c02766.

Fan, Z, Wang, Y, Ying, P, Song, K, Wang, J, Wang, Y, Zeng, Z, Xu, K, Lindgren, E, Rahm, JM, Gabourie, AJ, Liu, J, Dong, H, Wu, J, Chen, Y, Zhong, Z, Sun, J, Erhart, P, Su, Y, Ala-Nissila, T (2022) GPUMD: A package for constructing accurate machine-learned potentials and performing highly efficient atomistic simulations, The Journal of Chemical Physics, 157(11), 114801, ISSN: 0021-9606. DOI: 10.1063/5.0106617.

Bordbar, H, Alinejad, F, Conley, K, Ala-Nissila, T, Hostikka, S (2022) Flame detection by heat from the infrared spectrum: Optimization and sensitivity analysis, Fire Safety Journal, 133, 103673, ISSN: 0379-7112. DOI: 10.1016/j.firesaf.2022.103673.

Yang, X, Scacchi, A, Vahid, H, Sammalkorpi, M, Ala-Nissila, T (2022) Interaction between two polyelectrolytes in monovalent aqueous salt solutions, Physical Chemistry Chemical Physics, 24(35), 21112, ISSN: 1463-9076. DOI: 10.1039/d2cp02066a.

Mansell, R, Zhou, Y, Kohvakka, K, Ying, S-C, Elder, KR, Granato, E, Ala-Nissila, T, van Dijken, S (2022) Weakly pinned skyrmion liquid in a magnetic heterostructure, Physical Review B, 106(5), 054413, ISSN: 2469-9950. DOI: 10.1103/physrevb.106.054413.

Keogh, R, Chandragiri, S, Loewe, B, Ala-Nissila, T, Thampi, SP, Shendruk, TN (2022) Helical flow states in active nematics, Physical Review E, 106(1), L012602, ISSN: 2470-0045. DOI: 10.1103/physreve.106.l012602.

Vadimov, V, Viitanen, A, Mörstedt, T, Ala-Nissila, T, Möttönen, M (2022) Single-junction quantum-circuit refrigerator, AIP Advances, 12(7), 075005, DOI: 10.1063/5.0096849.

Sarabadani, J, Metzler, R, Ala-Nissila, T (2022) Driven polymer translocation into a channel: Isoflux tension propagation theory and Langevin dynamics simulations, Physical Review Research, 4(3), 033003, DOI: 10.1103/physrevresearch.4.033003.

Seyedheydari, F, Conley, K, Ylä-Oijala, P, Sihvola, A, Ala-Nissila, T (2022) Electromagnetic response and optical properties of anisotropic CuSbS₂ nanoparticles, Journal of the Optical Society of America B, 39(7), pp.1743-1751, ISSN: 0740-3224. DOI: 10.1364/josab.456468.

Vahid, H, Scacchi, A, Yang, X, Ala-Nissila, T, Sammalkorpi, M (2022) Modified Poisson–Boltzmann theory for polyelectrolytes in monovalent salt solutions with finite-size ions, The Journal of Chemical Physics, 156(21), 214906, ISSN: 0021-9606. DOI: 10.1063/5.0092273.

Granato, E, Greb, M, Elder, KR, Ying, SC, Ala-Nissila, T (2022) Dynamic scaling of out-of-plane fluctuations in freestanding graphene, Physical Review B, 105(20), L201409, ISSN: 2469-9950. DOI: 10.1103/physrevb.105.l201409.

Alipour, S, Rezakhani, AT, Chenu, A, Campo, AD, Ala-Nissila, T (2022) Entropy-based formulation of thermodynamics in arbitrary quantum evolution, Physical Review A, 105(4), L040201, ISSN: 2469-9926. DOI: 10.1103/physreva.105.l040201.

Molla, J, de León Chávez, AP, Hiraoka, T, Ala-Nissila, T, Kivelä, M, Leskelä, L (2022) Adaptive and optimized COVID-19 vaccination strategies across geographical regions and age groups, PLoS Computational Biology, 18(4), e1009974, ISSN: 1553-734X. DOI: 10.1371/journal.pcbi.1009974.

Pyhäranta, T, Alipour, S, Rezakhani, AT, Ala-Nissila, T (2022) Correlation-enabled energy exchange in quantum systems without external driving, Physical Review A, 105(2), 022204, ISSN: 2469-9926. DOI: 10.1103/physreva.105.022204.

Wang, Y, Fan, Z, Qian, P, Ala-Nissila, T, Caro, MA (2022) Structure and pore size distribution in nanoporous carbon, Chemistry of Materials, 34(2), pp.617-628, ISSN: 0897-4756. DOI: 10.1021/acs.chemmater.1c03279.

Dong, H, Hirvonen, P, Fan, Z, Qian, P, Su, Y, Ala-Nissila, T (2021) Heat transport across graphene/hexagonal-BN tilted grain boundaries from phase-field crystal model and molecular dynamics simulations, Journal of Applied Physics, 130(23), 235102, ISSN: 0021-8979. DOI: 10.1063/5.0069134.

Babu, AP, Tuorila, J, Ala-Nissila, T (2021) State leakage during fast decay and control of a superconducting transmon qubit, npj Quantum Information, 7(1), 30, DOI: 10.1038/s41534-020-00357-z.

Brorsson, J, Hashemi, A, Fan, Z, Fransson, E, Eriksson, F, Ala-Nissila, T, Krasheninnikov, AV, Komsa, H, Erhart, P (2021) Efficient calculation of the lattice thermal conductivity by atomistic simulations with ab initio accuracy, Advanced Theory and Simulations, 5(2), 2100217, ISSN: 2513-0390. DOI: 10.1002/adts.202100217.

Zhou, Y, Mansell, R, Ala-Nissila, T, van Dijken, S (2021) Thermal motion of skyrmion arrays in granular films, Physical Review B, 104(14), 144417, ISSN: 2469-9950. DOI: 10.1103/physrevb.104.144417.

Conley, KM, Cocchi, C, Ala-Nissila, T (2021) Formation of Near-IR Excitons in Low-Dimensional CuSbS2, The Journal of Physical Chemistry C, 125(38), pp.21087-21092, ISSN: 1932-7447. DOI: 10.1021/acs.jpcc.1c06530.

Fan, Z, Zeng, Z, Zhang, C, Wang, Y, Song, K, Dong, H, Chen, Y, Ala-Nissila, T (2021) Neuroevolution machine learning potentials: Combining high accuracy and low cost in atomistic simulations and application to heat transport, Physical Review B, 104(10), 104309, ISSN: 2469-9950. DOI: 10.1103/physrevb.104.104309.

Muhli, H, Chen, X, Bartók, AP, Hernández-León, P, Csányi, G, Ala-Nissila, T, Caro, MA (2021) Machine learning force fields based on local parametrization of dispersion interactions: Application to the phase diagram of C60, Physical Review B, 104(5), 054106, ISSN: 2469-9950. DOI: 10.1103/physrevb.104.054106.

Scacchi, A, Sammalkorpi, M, Ala-Nissila, T (2021) Self-assembly of binary solutions to complex structures, The Journal of Chemical Physics, 155(1), pp.014904-014904, ISSN: 0021-9606. DOI: 10.1063/5.0053365.

Javan Nikkhah, S, Turunen, E, Lepo, A, Ala-Nissila, T, Sammalkorpi, M (2021) Multicore Assemblies from Three-Component Linear Homo-Copolymer Systems: A Coarse-Grained Modeling Study, Polymers, 13(13), pp.2193-2193, DOI: 10.3390/polym13132193.

Vadimov, V, Tuorila, J, Orell, T, Stockburger, J, Ala-Nissila, T, Ankerhold, J, Möttönen, M (2021) Validity of Born-Markov master equations for single- and two-qubit systems, Physical Review B, 103(21), 214308, ISSN: 2469-9950. DOI: 10.1103/physrevb.103.214308.

Conley, K, Moosakhani, S, Thakore, V, Ge, Y, Lehtonen, J, Karttunen, M, Hannula, S-P, Ala-Nissila, T (2021) Silica-silicon composites for near-infrared reflection: A comprehensive computational and experimental study, Ceramics International, 47(12), pp.16833-16840, ISSN: 0272-8842. DOI: 10.1016/j.ceramint.2021.02.257.

Pandey, D, Sampaio, R, Ala-Nissila, T, Albareda, G, Oriols, X (2021) Identifying weak values with intrinsic dynamical properties in modal theories, Physical Review A, 103(5), 052219, ISSN: 2469-9926. DOI: 10.1103/physreva.103.052219.

Gabourie, AJ, Fan, Z, Ala-Nissila, T, Pop, E (2021) Spectral decomposition of thermal conductivity: Comparing velocity decomposition methods in homogeneous molecular dynamics simulations, Physical Review B, 103(20), 205421, ISSN: 2469-9950. DOI: 10.1103/physrevb.103.205421.

Wang, H, Cheng, Y, Fan, Z, Guo, Y, Zhang, Z, Bescond, M, Nomura, M, Ala-Nissila, T, Volz, S, Xiong, S (2021) Anomalous thermal conductivity enhancement in low dimensional resonant nanostructures due to imperfections, Nanoscale, 13(22), pp.10010-10015, ISSN: 2040-3364. DOI: 10.1039/d1nr01679b.

Scacchi, A, Nikkhah, SJ, Sammalkorpi, M, Ala-Nissila, T (2021) Self-assembly in soft matter with multiple length scales, Physical Review Research, 3(2), L022008, DOI: 10.1103/physrevresearch.3.l022008.

Vadimov, V, Hyart, T, Lado, JL, Möttönen, M, Ala-Nissila, T (2021) Many-body Majorana-like zero modes without gauge symmetry breaking, Physical Review Research, 3(2), 023002, DOI: 10.1103/physrevresearch.3.023002.

Hashemi, A, Linderälv, C, Krasheninnikov, AV, Ala-Nissila, T, Erhart, P, Komsa, H-P (2021) Photoluminescence line shapes for color centers in silicon carbide from density functional theory calculations, Physical Review B, 103(12), 125203, ISSN: 2469-9950. DOI: 10.1103/physrevb.103.125203.

Elder, KR, Achim, CV, Heinonen, V, Granato, E, Ying, SC, Ala-Nissila, T (2021) Modeling buckling and topological defects in stacked two-dimensional layers of graphene and hexagonal boron nitride, Physical Review Materials, 5(3), 034004, DOI: 10.1103/physrevmaterials.5.034004.

Khalilian, H, Sarabadani, J, Ala-Nissila, T (2021) Polymer translocation through a nanopore assisted by an environment of active rods, Physical Review Research, 3(1), 013080, DOI: 10.1103/physrevresearch.3.013080.

Dong, H, Xiong, S, Fan, Z, Qian, P, Su, Y, Ala-Nissila, T (2021) Interpretation of apparent thermal conductivity in finite systems from equilibrium molecular dynamics simulations, Physical Review B, 103(3), 035417, ISSN: 2469-9950. DOI: 10.1103/physrevb.103.035417.

Seyedheydari, F, Conley, KM, Thakore, V, Karttunen, M, Sihvola, A, Ala-Nissila, T (2021) Electromagnetic response of nanoparticles with a metallic core and a semiconductor shell, Journal of Physics Communications, 5(1), pp.015002-015002, DOI: 10.1088/2399-6528/abd4c4.

Ghosh, B, Sarabadani, J, Chaudhury, S, Ala-Nissila, T (2021) Pulling a folded polymer through a nanopore, Journal of Physics: Condensed Matter, 33(1), pp.015101-015101, ISSN: 0953-8984. DOI: 10.1088/1361-648x/abb687.

Alipour, S, Rezakhani, AT, Babu, AP, Mølmer, K, Möttönen, M, Ala-Nissila, T (2020) Correlation-Picture Approach to Open-Quantum-System Dynamics, Physical Review X, 10(4), 041024, DOI: 10.1103/physrevx.10.041024.

Vadimov, V, Ala-Nissila, T, Möttönen, M (2020) Persistence of correlations in many-body localized spin chains, Physical Review Research, 2(4), 043154, DOI: 10.1103/physrevresearch.2.043154.

Sarabadani, J, Buyukdagli, S, Ala-Nissila, T (2020) Pulling a DNA molecule through a nanopore embedded in an anionic membrane: tension propagation coupled to electrostatics, Journal of Physics: Condensed Matter, 32(38), pp.385101-385101, ISSN: 0953-8984. DOI: 10.1088/1361-648x/ab9342.

Conley, KM, Thakore, V, Seyedheydari, F, Karttunen, M, Ala-Nissila, T (2020) Directing near-infrared photon transport with core@shell particles, AIP Advances, 10(9), pp.095128-095128, DOI: 10.1063/5.0015553.

Najem, S, Krayem, A, Ala-Nissila, T, Grant, M (2020) Kinetic roughening of the urban skyline, Physical Review E, 101(5), 050301, ISSN: 2470-0045. DOI: 10.1103/physreve.101.050301.

Alipour, S, Tuohino, S, Rezakhani, AT, Ala-Nissila, T (2020) Unreliability of mutual information as a measure for variations in total correlations, PHYSICAL REVIEW A, 101(4), ARTN 042311, ISSN: 2469-9926. DOI: 10.1103/PhysRevA.101.042311.

Dong, H, Fan, Z, Qian, P, Ala-Nissila, T, Su, Y (2020) Thermal conductivity reduction in carbon nanotube by fullerene encapsulation: A molecular dynamics study, Carbon, 161, pp.800-808, ISSN: 0008-6223. DOI: 10.1016/j.carbon.2020.01.114.

Seyedheydari, F, Conley, K, Ala-Nissila, T (2020) Near-IR Plasmons in Micro and Nanoparticles with a Semiconductor Core, Photonics, 7(1), pp.10-10, DOI: 10.3390/photonics7010010.

Fan, Z, Wang, Y, Gu, X, Qian, P, Su, Y, Ala-Nissila, T (2019) A minimal Tersoff potential for diamond silicon with improved descriptions of elastic and phonon transport properties, Journal of Physics: Condensed Matter, 32(13), 135901, ISSN: 0953-8984. DOI: 10.1088/1361-648X/ab5c5f.

Li, Z, Xiong, S, Sievers, C, Hu, Y, Fan, Z, Wei, N, Bao, H, Chen, S, Donadio, D, Ala-Nissila, T (2019) Influence of thermostatting on nonequilibrium molecular dynamics simulations of heat conduction in solids, The Journal of Chemical Physics, 151(23), pp.234105-234105, ISSN: 0021-9606. DOI: 10.1063/1.5132543.

Hirvonen, P, Heinonen, V, Dong, H, Fan, Z, Elder, KR, Ala-Nissila, T (2019) Phase-field crystal model for heterostructures, Physical Review B, 100(16), ISSN: 2469-9950. DOI: 10.1103/physrevb.100.165412.

Basilewitsch, D, Cosco, F, Gullo, NL, Möttönen, M, Ala-Nissilä, T, Koch, CP, Maniscalco, S (2019) Reservoir engineering using quantum optimal control for qubit reset, New Journal of Physics, 21(9), pp.093054-093054, DOI: 10.1088/1367-2630/ab41ad.

Tuorila, J, Stockburger, J, Ala-Nissila, T, Ankerhold, J, Möttönen, M (2019) System-environment correlations in qubit initialization and control, Physical Review Research, 1(1), 013004, DOI: 10.1103/physrevresearch.1.013004.

Sampaio, R, Anders, J, Philbin, TG, Ala-Nissila, T (2019) Contributions to single-shot energy exchanges in open quantum systems, Physical Review E, 99(6), ISSN: 2470-0045. DOI: 10.1103/physreve.99.062131.

Fan, Z, Dong, H, Harju, A, Ala-Nissila, T (2019) Homogeneous nonequilibrium molecular dynamics method for heat transport and spectral decomposition with many-body potentials, Physical review B: Condensed matter and materials physics, ISSN: 1098-0121. DOI: 10.1103/PhysRevB.99.064308.

Xu, K, Gabourie, AJ, Hashemi, A, Fan, Z, Wei, N, Farimani, AB, Komsa, H-P, Krasheninnikov, AV, Pop, E, Ala-Nissila, T (2019) Thermal transport in MoS2 from molecular dynamics using different empirical potentials, Physical Review B, 99(5), 054303, ISSN: 2469-9950. DOI: 10.1103/physrevb.99.054303.

Alcanzare, MM, Karttunen, M, Ala-Nissila, T (2019) Propulsion and controlled steering of magnetic nanohelices, Soft Matter, DOI: 10.1039/c8sm00037a.

Buyukdagli, S, Sarabadani, J, Ala-Nissila, T (2019) Theoretical Modeling of Polymer Translocation: From the Electrohydrodynamics of Short Polymers to the Fluctuating Long Polymers, Polymers, 11(1), pp.118-118, DOI: 10.3390/polym11010118.

Buyukdagli, S, Ala-Nissila, T, Blossey, R (2019) Comment on 'Nonlocal statistical field theory of dipolar particles in electrolyte solutions', Journal of physics. Condensed matter : an Institute of Physics journal, 31(7), pp.078001-078001, DOI: 10.1088/1361-648X/aaf8c6.

Buyukdagli, S, Sarabadani, J, Ala-Nissila, T (2018) Dielectric trapping of biopolymers translocating through insulating membranes, Polymers, 10(11), pp.1242-1242, DOI: 10.3390/polym10111242.

Thakore, V, Tang, J, Conley, K, Ala-Nissila, T, Karttunen, M (2018) Thermoplasmonic response of semiconductor nanoparticles: A comparison with metals, Advanced Theory and Simulations, 20, pp.1-17, ISSN: 2513-0390. DOI: 10.1002/adts.201800100.

Hirvonen, P, La Boissoniere, GM, Fan, Z, Vasile Achim, C, Provatas, N, Elder, KR, Ala-Nissila, T (2018) Grain extraction and microstructural analysis method for two-dimensional poly and quasicrystalline solids, PHYSICAL REVIEW MATERIALS, 2(10), ARTN 103603, ISSN: 2475-9953. DOI: 10.1103/PhysRevMaterials.2.103603.

Xu, K, Fan, Z, Zhang, J, Wei, N, Ala-Nissila, T (2018) Thermal transport properties of single-layer black phosphorus from extensive molecular dynamics simulations, MODELLING AND SIMULATION IN MATERIALS SCIENCE AND ENGINEERING, 26(8), ARTN 085001, ISSN: 0965-0393. DOI: 10.1088/1361-651X/aae180.

Jalalinejad, A, Bassereh, H, Salari, V, Ala-Nissila, T, Giacometti, A (2018) Excitation energy transport with noise and disorder in a model of the selectivity filter of an ion channel, Journal of Physics Condensed Matter, 30(41), ISSN: 0953-8984. DOI: 10.1088/1361-648X/aadeab.

Dong, H, Hirvonen, P, Fan, Z, Ala-Nissila, T (2018) Heat transport in pristine and polycrystalline single-layer hexagonal boron nitride, Physical Chemistry Chemical Physics, 20(38), pp.24602-24612, ISSN: 1463-9076. DOI: 10.1039/c8cp05159c.

Buyukdagli, S and Ala-Nissila, T (2018) PH-mediated regulation of polymer transport through SiN pores, EPL, 123(3), ISSN: 0295-5075. DOI: 10.1209/0295-5075/123/38003.

Dong, H, Fan, Z, Shi, L, Harju, A, Ala-Nissila, T (2018) Equivalence of the equilibrium and the nonequilibrium molecular dynamics methods for thermal conductivity calculations: From bulk to nanowire silicon, Physical Review B, 97(9), ISSN: 2469-9950. DOI: 10.1103/PhysRevB.97.094305.

Klaas, M, Flayac, H, Amthor, M, Savenko, IG, Brodbeck, S, Ala-Nissila, T, Klembt, S, Schneider, C, Höfling, S (2018) Evolution of Temporal Coherence in Confined Exciton-Polariton Condensates, Physical Review Letters, 120(1), ISSN: 0031-9007. DOI: 10.1103/PhysRevLett.120.017401.

Mikkola, V, Puupponen, S, Granbohm, H, Saari, K, Ala-Nissila, T, Seppala, A (2018) Influence of particle properties on convective heat transfer of nanofluids, International Journal of Thermal Sciences, 124, pp.187-195, ISSN: 1290-0729. DOI: 10.1016/j.ijthermalsci.2017.10.015.

Sampaio, R, Suomela, S, Ala-Nissila, T, Anders, J, Philbin, TG (2018) Quantum work in the Bohmian framework, Physical Review A, 97(1), ISSN: 2469-9926. DOI: 10.1103/PhysRevA.97.012131.

Sarabadani, J, Ghosh, B, Chaudhury, S, Ala-Nissila, T (2018) Dynamics of end-pulled polymer translocation through a nanopore, EPL, 120(3), ISSN: 0295-5075. DOI: 10.1209/0295-5075/120/38004.

Buschmann, MH, Azizian, R, Kempe, T, Julia, JE, Martinez-Cuenca, R, Sunden, B, Wu, Z, Seppala, A, Ala-Nissila, T (2018) Correct interpretation of nanofluid convective heat transfer, International Journal of Thermal Sciences, 129, pp.504-531, ISSN: 1290-0729. DOI: 10.1016/j.ijthermalsci.2017.11.003.

Partanen, M, Tan, KY, Masuda, S, Govenius, J, Lake, RE, Jenei, M, Gronberg, L, Hassel, J, Simbierowicz, S, Vesterinen, V, Tuorila, J, Ala-Nissila, T, Mottonen, M (2018) Flux-tunable heat sink for quantum electric circuits, Scientific Reports, 8(1), DOI: 10.1038/s41598-018-24449-1.

Sarabadani, J and Ala-Nissila, T (2018) Theory of pore-driven and end-pulled polymer translocation dynamics through a nanopore: an overview, Journal of Physics Condensed Matter, 30(27), ISSN: 0953-8984. DOI: 10.1088/1361-648X/aac796.

Azizi, K, Hirvonen, P, Fan, Z, Harju, A, Elder, KR, Ala-Nissila, T, Allaei, SMV (2017) Kapitza thermal resistance across individual grain boundaries in graphene, Carbon, 125, pp.384-390, ISSN: 0008-6223. DOI: 10.1016/j.carbon.2017.09.059.

Elder, KR, Achim, CV, Granato, E, Ying, SC, Ala-Nissila, T (2017) Striped, honeycomb, and twisted moire patterns in surface adsorption systems with highly degenerate commensurate ground states, Physical Review B, 96(19), pp.195439-195439, ISSN: 2469-9950. DOI: 10.1103/PhysRevB.96.195439.

Fan, Z, Hirvonen, P, Pereira, LFC, Ervasti, MM, Elder, KR, Donadio, D, Harju, A, Ala-Nissila, T (2017) Bimodal Grain-Size Scaling of Thermal Transport in Polycrystalline Graphene from Large-Scale Molecular Dynamics Simulations, Nano Letters, 17(10), pp.5919-5924, ISSN: 1530-6984. DOI: 10.1021/acs.nanolett.7b01742.

Maras, E, Pizzagalli, L, Ala-Nissila, T, Jónsson, H (2017) Atomic Scale Formation Mechanism of Edge Dislocation Relieving Lattice Strain in a GeSi overlayer on Si(001), Scientific Reports, 7(1), DOI: 10.1038/s41598-017-12009-y.

Bassereh, H, Salari, V, Shahbazi, F, Ala-Nissila, T (2017) Perfect quantum excitation energy transport via single edge perturbation in a complete network, European Physical Journal B, 90(6), ISSN: 1434-6028. DOI: 10.1140/epjb/e2017-80048-1.

Cerbelaud, M, Maria Laganapan, A, Ala-Nissila, T, Ferrando, R, Videcoq, A (2017) Shear viscosity in hard-sphere and adhesive colloidal suspensions with reverse non-equilibrium molecular dynamics, Soft Matter, ISSN: 1744-6848. DOI: 10.1039/C7SM00441A.

Fan, Z, Pereira, LFC, Hirvonen, P, Ervasti, MM, Elder, KR, Donadio, D, Ala-Nissila, T, Harju, A (2017) Thermal conductivity decomposition in two-dimensional materials: Application to graphene, Physical Review B - Condensed Matter and Materials Physics, 95(14), ISSN: 1098-0121. DOI: 10.1103/PhysRevB.95.144309.

Sampaio, R, Suomela, S, Schmidt, R, Ala-Nissila, T (2017) Quantifying non-Markovianity due to driving and a finite-size environment in an open quantum system, Physical Review A: Atomic, Molecular and Optical Physics, 95(2), 022120, ISSN: 1094-1622. DOI: 10.1103/PhysRevA.95.022120.

Alcanzare, MMT, Thakore, V, Ollila, STT, Karttunen, M, Ala-Nissila, T (2017) Controlled propulsion and separation of helical particles at the nanoscale, Soft Matter, 13(11), pp.2148-2154, ISSN: 1744-683X. DOI: 10.1039/c6sm02437h.

Elder, KR, Achim, CV, Granato, E, Ying, SC, Ala-Nissila, T (2017) Commensurate-incommensurate transition and domain wall dynamics of adsorbed overlayers on a honeycomb substrate, EPL, 116(5), ISSN: 0295-5075. DOI: 10.1209/0295-5075/116/56002.

Mikkola, V, Puupponen, S, Saari, K, Ala-Nissila, T, Seppala, A (2017) Thermal properties and convective heat transfer of phase changing paraffin nanofluids, International Journal of Thermal Sciences, 117, pp.163-171, ISSN: 1290-0729. DOI: 10.1016/j.ijthermalsci.2017.03.024.

Hirvonen, P, Fan, Z, Ervasti, MM, Harju, A, Elder, KR, Ala-Nissila, T (2017) Energetics and structure of grain boundary triple junctions in graphene, Scientific Reports, 7(1), ISSN: 2045-2322. DOI: 10.1038/s41598-017-04852-w.

Tang, J, Thakore, V, Ala-Nissila, T (2017) Plasmonically enhanced reflectance of heat radiation from low-bandgap semiconductor microinclusions, Scientific Reports, 7(1), DOI: 10.1038/s41598-017-05630-4.

Tuorila, J, Partanen, M, Ala-Nissila, T, Mottonen, M (2017) Efficient protocol for qubit initialization with a tunable environment, npj Quantum Information, 3(1), ISSN: 2056-6387. DOI: 10.1038/s41534-017-0027-1.

Sarabadani, J, Ikonen, T, Mokkonen, H, Ala-Nissila, T, Carson, S, Wanunu, M (2017) Driven translocation of a semi-flexible polymer through a nanopore, Scientific Reports, 7(1), DOI: 10.1038/s41598-017-07227-3.

Buyukdagli, S and Ala-Nissila, T (2017) Controlling polymer capture and translocation by electrostatic polymer-pore interactions, J Chem Phys, 147(11), pp.114904-114904, ISSN: 0021-9606. DOI: 10.1063/1.5004182.

Buyukdagli, S and Ala-Nissila, T (2017) Multivalent cation induced attraction of anionic polymers by like-charged pores, Journal of Chemical Physics, 147(14), ISSN: 0021-9606. DOI: 10.1063/1.4994018.

Granato, E, Ying, SC, Elder, KR, Ala-Nissila, T (2016) Mass transport of adsorbates near a discontinuous structural phase transition, Physical Review B, 94(23), ISSN: 2469-9950. DOI: 10.1103/PhysRevB.94.235412.

Sampaio, R, Suomela, S, Ala-Nissila, T (2016) Calorimetric measurement of work for a driven harmonic oscillator, Physical Review E, 94(6), ISSN: 2470-0045. DOI: 10.1103/PhysRevE.94.062122.

Mökkönen, H, Ala-Nissila, T, Jónsson, H (2016) Efficient dynamical correction of the transition state theory rate estimate for a flat energy barrier, Journal of Chemical Physics, 145(9), ISSN: 0021-9606. DOI: 10.1063/1.4962167.

Suomela, S, Sampaio, R, Ala-Nissila, T (2016) Comparison between quantum jumps and master equation in the presence of a finite environment, Physical Review E, 94(3), ISSN: 2470-0045. DOI: 10.1103/PhysRevE.94.032138.

Maras, E, Trushin, O, Stukowski, A, Ala-Nissila, T, Jónsson, H (2016) Global transition path search for dislocation formation in Ge on Si(001), Computer Physics Communications, 205, pp.13-21, ISSN: 0010-4655. DOI: 10.1016/j.cpc.2016.04.001.

Hirvonen, P, Ervasti, MM, Fan, Z, Jalalvand, M, Seymour, M, Vaez Allaei, SM, Provatas, N, Harju, A, Elder, KR, Ala-Nissila, T (2016) Multiscale modeling of polycrystalline graphene: A comparison of structure and defect energies of realistic samples from phase field crystal models, Physical Review B, 94(3), ISSN: 2469-9950. DOI: 10.1103/PhysRevB.94.035414.

Buyukdagli, S and Ala-Nissila, T (2016) Electrostatics of polymer translocation events in electrolyte solutions, Journal of Chemical Physics, 145(1), ISSN: 0021-9606. DOI: 10.1063/1.4954919.

Schmidt, R, Maniscalco, S, Ala-Nissila, T (2016) Heat flux and information backflow in cold environments, Physical Review A, 94(1), ISSN: 2469-9926. DOI: 10.1103/PhysRevA.94.010101.

Suomela, S, Kutvonen, A, Ala-Nissila, T (2016) Quantum jump model for a system with a finite-size environment, Physical Review E, 93(6), ISSN: 2470-0045. DOI: 10.1103/PhysRevE.93.062106.

Heinonen, V, Achim, CV, Ala-Nissila, T (2016) Long-wavelength properties of phase-field-crystal models with second-order dynamics, Physical Review E, 93(5), ISSN: 2470-0045. DOI: 10.1103/PhysRevE.93.053003.

Tzarouchis, DC, Ylä-Oijala, P, Ala-Nissila, T, Sihvola, A (2016) Shape effects on surface plasmons in spherical, cubic, and rod-shaped silver nanoparticles, Applied Physics A, 122(4), 298, ISSN: 0947-8396. DOI: 10.1007/s00339-016-9851-y.

Kutvonen, A, Sagawa, T, Ala-Nissila, T (2016) Thermodynamics of information exchange between two coupled quantum dots, Physical Review E, 93(3), 032147, ISSN: 2470-0045. DOI: 10.1103/physreve.93.032147.

Trushin, O, Maras, E, Stukowski, A, Granato, E, Ying, SC, Jónsson, H, Ala-Nissila, T (2016) Minimum energy path for the nucleation of misfit dislocations in Ge/Si(0 0 1) heteroepitaxy, Modelling and Simulation in Materials Science and Engineering, 24(3), pp.035007-035007, ISSN: 0965-0393. DOI: 10.1088/0965-0393/24/3/035007.

Buyukdagli, S and Ala-Nissila, T (2016) Electrostatic energy barriers from dielectric membranes upon approach of translocating DNA molecules, The Journal of Chemical Physics, 144(8), pp.084902-084902, ISSN: 0021-9606. DOI: 10.1063/1.4942177.

Kutvonen, A, Koski, J, Ala-Nissila, T (2016) Thermodynamics and efficiency of an autonomous on-chip Maxwell’s demon, Scientific Reports, 6(1), 21126, DOI: 10.1038/srep21126.

Heinonen, V, Achim, CV, Kosterlitz, JM, Ying, S-C, Lowengrub, J, Ala-Nissila, T (2016) Consistent Hydrodynamics for Phase Field Crystals, Physical Review Letters, 116(2), 024303, ISSN: 0031-9007. DOI: 10.1103/physrevlett.116.024303.

Alcanzare, MM, Ollila, ST, Thakore, V, Laganapan, AM, Videcoq, A, Cerbelaud, M, Ferrando, R, Ala-Nissila, T (2016) Shape and scale dependent diffusivity of colloidal nanoclusters and aggregates, European Physical Journal: Special Topics, 225(4), pp.729-739, ISSN: 1951-6355. DOI: 10.1140/epjst/e2015-50263-y.

Elder, KR, Chen, Z, Elder, KLM, Hirvonen, P, Mkhonta, SK, Ying, SC, Granato, E, Huang, Z-F, Ala-Nissila, T (2016) Honeycomb and triangular domain wall networks in heteroepitaxial systems, Journal of Chemical Physics, 144(17), ISSN: 0021-9606. DOI: 10.1063/1.4948370.

Puupponen, S, Mikkola, V, Ala-Nissila, T, Seppala, A (2016) Novel microstructured polyol-polystyrene composites for seasonal heat storage, Applied Energy, 172, pp.96-106, ISSN: 0306-2619. DOI: 10.1016/j.apenergy.2016.03.023.

Vartia, OS, Ylä-Oijala, P, Markkanen, J, Puupponen, S, Seppälä, A, Sihvola, A, Ala-Nissila, T (2016) On the applicability of discrete dipole approximation for plasmonic particles, Journal of Quantitative Spectroscopy and Radiative Transfer, 169, pp.23-35, ISSN: 0022-4073. DOI: 10.1016/j.jqsrt.2015.10.003.

Tzarouchis, DC, Yla-Oijala, P, Ala-Nissila, T, Sihvola, A (2016) Plasmonic properties and energy flow in rounded hexahedral and octahedral nanoparticles, Journal of the Optical Society of America B, 33(12), pp.2626-2626, ISSN: 0740-3224. DOI: 10.1364/JOSAB.33.002626.

Koski, JV, Kutvonen, A, Khaymovich, IM, Ala-Nissila, T, Pekola, JP (2015) On-Chip Maxwell’s Demon as an Information-Powered Refrigerator, Physical Review Letters, 115(26), 260602, ISSN: 0031-9007. DOI: 10.1103/physrevlett.115.260602.

Trushin, OS, Kupryanov, AN, Ying, S-C, Granato, E, Ala-Nissila, T (2015) Atomic mechanisms of strain relaxation in heteroepitaxial Cu/Ni(001) system, Russian Microelectronics, 44(6), pp.410-413, ISSN: 1063-7397. DOI: 10.1134/s1063739715060086.

Flayac, H, Savenko, IG, Möttönen, M, Ala-Nissila, T (2015) Quantum treatment of the Bose-Einstein condensation in nonequilibrium systems, Physical Review B, 92(11), 115117, ISSN: 1098-0121. DOI: 10.1103/physrevb.92.115117.

Sarabadani, J, Ikonen, T, Ala-Nissila, T (2015) Theory of polymer translocation through a flickering nanopore under an alternating driving force, The Journal of Chemical Physics, 143(7), pp.074905-074905, ISSN: 0021-9606. DOI: 10.1063/1.4928743.

Seppälä, A, Vartia, O, Seppälä, P, Saari, K, Noponen, T, Ala-Nissila, T (2015) Virtual enclosure model for thermal radiation extinction inside porous materials with closed cell structure, International Journal of Heat and Mass Transfer, 87, pp.79-91, ISSN: 0017-9310. DOI: 10.1016/j.ijheatmasstransfer.2015.03.074.

Kutvonen, A, Ala-Nissila, T, Pekola, J (2015) Entropy production in a non-Markovian environment, Physical Review E, 92(1), 012107, ISSN: 1539-3755. DOI: 10.1103/physreve.92.012107.

Mökkönen, H, Ikonen, T, Ala-Nissila, T, Jónsson, H (2015) Transition state theory approach to polymer escape from a one dimensional potential well, The Journal of Chemical Physics, 142(22), pp.224906-224906, ISSN: 0021-9606. DOI: 10.1063/1.4921959.

Maras, E, Salles, N, Tétot, R, Ala-Nissila, T, Jónsson, H (2015) Improved Tight-Binding Charge Transfer Model and Calculations of Energetics of a Step on the Rutile TiO₂(110) Surface, The Journal of Physical Chemistry C, 119(19), pp.10391-10399, ISSN: 1932-7447. DOI: 10.1021/acs.jpcc.5b01580.

Laganapan, AMK, Videcoq, A, Bienia, M, Ala-Nissila, T, Bochicchio, D, Ferrando, R (2015) Computation of shear viscosity of colloidal suspensions by SRD-MD, The Journal of Chemical Physics, 142(14), pp.144101-144101, ISSN: 0021-9606. DOI: 10.1063/1.4917039.

Buyukdagli, S, Blossey, R, Ala-Nissila, T (2015) Ionic Current Inversion in Pressure-Driven Polymer Translocation through Nanopores, Physical Review Letters, 114(8), 088303, ISSN: 0031-9007. DOI: 10.1103/physrevlett.114.088303.

Suomela, S, Salmilehto, J, Savenko, IG, Ala-Nissila, T, Möttönen, M (2015) Fluctuations of work in nearly adiabatically driven open quantum systems, Physical Review E, 91(2), 022126, ISSN: 1539-3755. DOI: 10.1103/physreve.91.022126.

Puupponen, S, Seppälä, A, Vartia, O, Saari, K, Ala-Nissilä, T (2015) Preparation of paraffin and fatty acid phase changing nanoemulsions for heat transfer, Thermochimica Acta, 601, pp.33-38, ISSN: 0040-6031. DOI: 10.1016/j.tca.2014.12.020.

Saarinen, S, Puupponen, S, Meriläinen, A, Joneidi, A, Seppälä, A, Saari, K, Ala-Nissila, T (2015) Turbulent heat transfer characteristics in a circular tube and thermal properties of n-decane-in-water nanoemulsion fluids and micelles-in-water fluids, International Journal of Heat and Mass Transfer, 81, pp.246-251, ISSN: 0017-9310. DOI: 10.1016/j.ijheatmasstransfer.2014.10.029.

Sarabadani, J, Ikonen, T, Ala-Nissila, T (2014) Iso-flux tension propagation theory of driven polymer translocation: The role of initial configurations, The Journal of Chemical Physics, 141(21), pp.214907-214907, ISSN: 0021-9606. DOI: 10.1063/1.4903176.

Buyukdagli, S and Ala-Nissila, T (2014) Controlling Polymer Translocation and Ion Transport via Charge Correlations, Langmuir, 30(43), pp.12907-12915, ISSN: 0743-7463. DOI: 10.1021/la503327j.

Manneschi, C, Fanzio, P, Ala-Nissila, T, Angeli, E, Repetto, L, Firpo, G, Valbusa, U (2014) Stretching of DNA confined in nanochannels with charged walls, Biomicrofluidics, 8(6), pp.064121-064121, DOI: 10.1063/1.4904008.

Laaksonen, K, Li, S-Y, Puisto, SR, Rostedt, NKJ, Ala-Nissila, T, Granqvist, CG, Nieminen, RM, Niklasson, GA (2014) Nanoparticles of TiO 2 and VO 2 in dielectric media: Conditions for low optical scattering, and comparison between effective medium and four-flux theories, Solar Energy Materials and Solar Cells, 130, pp.132-137, ISSN: 0927-0248. DOI: 10.1016/j.solmat.2014.06.036.

Suomela, S, Solinas, P, Pekola, JP, Ankerhold, J, Ala-Nissila, T (2014) Moments of work in the two-point measurement protocol for a driven open quantum system, Physical Review B, 90(9), 094304, ISSN: 1098-0121. DOI: 10.1103/physrevb.90.094304.

Heinonen, V, Achim, CV, Elder, KR, Buyukdagli, S, Ala-Nissila, T (2014) Phase-field-crystal models and mechanical equilibrium, Physical Review E, 89(3), 032411, ISSN: 1539-3755. DOI: 10.1103/physreve.89.032411.

Ollila, STT, Denniston, C, Karttunen, M, Ala-Nissila, T (2014) Biopolymer Filtration in Corrugated Nanochannels, Physical Review Letters, 112(11), 118301, ISSN: 0031-9007. DOI: 10.1103/physrevlett.112.118301.

Laaksonen, K, Suomela, S, Puisto, SR, Rostedt, NKJ, Ala-Nissila, T, Nieminen, RM (2014) Influence of high-refractive-index oxide cores on optical properties of metal nanoshells, Journal of the Optical Society of America B, 31(3), pp.494-494, ISSN: 0740-3224. DOI: 10.1364/josab.31.000494.

Buyukdagli, S and Ala-Nissila, T (2014) Electrostatic correlations on the ionic selectivity of cylindrical membrane nanopores, The Journal of Chemical Physics, 140(6), pp.064701-064701, ISSN: 0021-9606. DOI: 10.1063/1.4864323.

Mökkönen, H, Ikonen, T, Jónsson, H, Ala-Nissila, T (2014) Polymer escape from a confining potential, The Journal of Chemical Physics, 140(5), pp.054907-054907, ISSN: 0021-9606. DOI: 10.1063/1.4863920.

Palyulin, VV, Ala-Nissila, T, Metzler, R (2014) Polymer translocation: the first two decades and the recent diversification, Soft Matter, 10(45), pp.9016-9037, ISSN: 1744-683X. DOI: 10.1039/c4sm01819b.

Tomilov, A, Videcoq, A, Cerbelaud, M, Piechowiak, MA, Chartier, T, Ala-Nissila, T, Bochicchio, D, Ferrando, R (2013) Aggregation in Colloidal Suspensions: Evaluation of the Role of Hydrodynamic Interactions by Means of Numerical Simulations, The Journal of Physical Chemistry B, 117(46), pp.14509-14517, ISSN: 1520-6106. DOI: 10.1021/jp407247y.

Koski, JV, Sagawa, T, Saira, O-P, Yoon, Y, Kutvonen, A, Solinas, P, Möttönen, M, Ala-Nissila, T, Pekola, JP (2013) Distribution of entropy production in a single-electron box, Nature Physics, 9(10), pp.644-648, ISSN: 1745-2473. DOI: 10.1038/nphys2711.

Granato, E, Ying, SC, Elder, KR, Ala-Nissila, T (2013) Anomalous Fast Dynamics of Adsorbate Overlayers near an Incommensurate Structural Transition, Physical Review Letters, 111(12), 126102, ISSN: 0031-9007. DOI: 10.1103/physrevlett.111.126102.

Samadashvili, N, Reischl, B, Hynninen, T, Ala-Nissilä, T, Foster, AS (2013) Atomistic simulations of friction at an ice-ice interface, Friction, 1(3), pp.242-251, ISSN: 2223-7690. DOI: 10.1007/s40544-013-0021-3.

Elder, KR, Rossi, G, Kanerva, P, Sanches, F, Ying, S-C, Granato, E, Achim, CV, Ala-Nissila, T (2013) Modeling self-organization of thin strained metallic overlayers from atomic to micron scales, Physical Review B, 88(7), 075423, ISSN: 1098-0121. DOI: 10.1103/physrevb.88.075423.

Ikonen, T, Bhattacharya, A, Ala-Nissila, T, Sung, W (2013) Influence of pore friction on the universal aspects of driven polymer translocation, EPL (Europhysics Letters), 103(3), pp.38001-38001, ISSN: 0295-5075. DOI: 10.1209/0295-5075/103/38001.

Mašín, M, Kotrla, M, Yang, B, Asta, M, Jahma, MO, Ala-Nissila, T (2013) Multiscale modeling of submonolayer growth for Fe/Mo (110), The European Physical Journal B, 86(8), 359, ISSN: 1434-6028. DOI: 10.1140/epjb/e2013-40440-5.

Buyukdagli, S and Ala-Nissila, T (2013) Alteration of gas phase ion polarizabilities upon hydration in high dielectric liquids, The Journal of Chemical Physics, 139(4), pp.044907-044907, ISSN: 0021-9606. DOI: 10.1063/1.4816011.

Buyukdagli, S and Ala-Nissila, T (2013) Microscopic formulation of nonlocal electrostatics in polar liquids embedding polarizable ions, Physical Review E, 87(6), 063201, ISSN: 1539-3755. DOI: 10.1103/physreve.87.063201.

Meriläinen, A, Seppälä, A, Saari, K, Seitsonen, J, Ruokolainen, J, Puisto, S, Rostedt, N, Ala-Nissila, T (2013) Influence of particle size and shape on turbulent heat transfer characteristics and pressure losses in water-based nanofluids, International Journal of Heat and Mass Transfer, 61, pp.439-448, ISSN: 0017-9310. DOI: 10.1016/j.ijheatmasstransfer.2013.02.032.

Ollila, STT, Denniston, C, Ala-Nissila, T (2013) One- and two-particle dynamics in microfluidic T-junctions, Physical Review E, 87(5), 050302, ISSN: 1539-3755. DOI: 10.1103/physreve.87.050302.

Manneschi, C, Angeli, E, Ala-Nissila, T, Repetto, L, Firpo, G, Valbusa, U (2013) Conformations of DNA in Triangular Nanochannels, Macromolecules, 46(10), pp.4198-4206, ISSN: 0024-9297. DOI: 10.1021/ma4000545.

Pekola, JP, Kutvonen, A, Ala-Nissila, T (2013) Dissipated work and fluctuation relations for non-equilibrium single-electron transitions, Journal of Statistical Mechanics: Theory and Experiment, 2013(02), pp.P02033-P02033, DOI: 10.1088/1742-5468/2013/02/p02033.

Laaksonen, K, Suomela, S, Puisto, SR, Rostedt, NKJ, Ala-Nissila, T, Nieminen, RM (2013) Influence of high-refractive-index oxide coating on optical properties of metal nanoparticles, Journal of the Optical Society of America B, 30(2), pp.338-338, ISSN: 0740-3224. DOI: 10.1364/josab.30.000338.

Heinonen, V, Mijailović, A, Achim, CV, Ala-Nissila, T, Rozas, RE, Horbach, J, Löwen, H (2013) Bcc crystal-fluid interfacial free energy in Yukawa systems, The Journal of Chemical Physics, 138(4), pp.044705-044705, ISSN: 0021-9606. DOI: 10.1063/1.4775744.

Ollila, STT, Denniston, C, Karttunen, M, Ala-Nissila, T (2013) Hydrodynamic effects on confined polymers, Soft Matter, 9(13), pp.3478-3478, ISSN: 1744-683X. DOI: 10.1039/c3sm27410a.

Ollila, STT, Smith, CJ, Ala-Nissila, T, Denniston, C (2013) The Hydrodynamic Radius of Particles in the Hybrid Lattice Boltzmann--Molecular Dynamics Method, Multiscale Modeling & Simulation, 11(1), pp.213-243, ISSN: 1540-3459. DOI: 10.1137/110858756.

Kutvonen, A, Rossi, G, Puisto, SR, Rostedt, NKJ, Ala-Nissila, T (2012) Influence of nanoparticle size, loading, and shape on the mechanical properties of polymer nanocomposites, The Journal of Chemical Physics, 137(21), pp.214901-214901, ISSN: 0021-9606. DOI: 10.1063/1.4767517.

Ollila, STT, Ala-Nissila, T, Denniston, C (2012) Hydrodynamic forces on steady and oscillating porous particles, Journal of Fluid Mechanics, 709, pp.123-148, ISSN: 0022-1120. DOI: 10.1017/jfm.2012.325.

Buyukdagli, S, Achim, CV, Ala-Nissila, T (2012) Electrostatic correlations in inhomogeneous charged fluids beyond loop expansion, The Journal of Chemical Physics, 137(10), pp.104902-104902, ISSN: 0021-9606. DOI: 10.1063/1.4750044.

Ikonen, T, Bhattacharya, A, Ala-Nissila, T, Sung, W (2012) Influence of non-universal effects on dynamical scaling in driven polymer translocation, The Journal of Chemical Physics, 137(8), pp.085101-085101, ISSN: 0021-9606. DOI: 10.1063/1.4742188.

Tomilov, A, Videcoq, A, Chartier, T, Ala-Nissilä, T, Vattulainen, I (2012) Tracer diffusion in colloidal suspensions under dilute and crowded conditions with hydrodynamic interactions, The Journal of Chemical Physics, 137(1), pp.014503-014503, ISSN: 0021-9606. DOI: 10.1063/1.4731661.

Buyukdagli, S and Ala-Nissila, T (2012) Dipolar depletion effect on the differential capacitance of carbon-based materials, EPL (Europhysics Letters), 98(6), pp.60003-60003, ISSN: 0295-5075. DOI: 10.1209/0295-5075/98/60003.

Elder, KR, Rossi, G, Kanerva, P, Sanches, F, Ying, S-C, Granato, E, Achim, CV, Ala-Nissila, T (2012) Patterning of Heteroepitaxial Overlayers from Nano to Micron Scales, Physical Review Letters, 108(22), 226102, ISSN: 0031-9007. DOI: 10.1103/physrevlett.108.226102.

Ikonen, T, Shin, J, Sung, W, Ala-Nissila, T (2012) Polymer translocation under time-dependent driving forces: Resonant activation induced by attractive polymer-pore interactions, The Journal of Chemical Physics, 136(20), pp.205104-205104, ISSN: 0021-9606. DOI: 10.1063/1.4722080.

Ikonen, T, Bhattacharya, A, Ala-Nissila, T, Sung, W (2012) Unifying model of driven polymer translocation, Physical Review E, 85(5), 051803, ISSN: 1539-3755. DOI: 10.1103/physreve.85.051803.

Kutvonen, A, Rossi, G, Ala-Nissila, T (2012) Correlations between mechanical, structural, and dynamical properties of polymer nanocomposites, Physical Review E, 85(4), 041803, ISSN: 1539-3755. DOI: 10.1103/physreve.85.041803.

Laurila, T, Carlson, A, Do-Quang, M, Ala-Nissila, T, Amberg, G (2012) Thermohydrodynamics of boiling in a van der Waals fluid, Physical Review E, 85(2), 026320, ISSN: 1539-3755. DOI: 10.1103/physreve.85.026320.

Buyukdagli, S and Ala-Nissila, T (2012) Excluded volume effects in macromolecular forces and ion-interface interactions, The Journal of Chemical Physics, 136(7), pp.074901-074901, ISSN: 0021-9606. DOI: 10.1063/1.3684880.

Hynninen, T, Dias, CL, Mkrtchyan, A, Heinonen, V, Karttunen, M, Foster, AS, Ala-Nissila, T (2012) A molecular dynamics implementation of the 3D Mercedes-Benz water model, Computer Physics Communications, 183(2), pp.363-369, ISSN: 0010-4655. DOI: 10.1016/j.cpc.2011.09.008.

Rossi, G, Elliott, IG, Ala-Nissila, T, Faller, R (2012) Molecular Dynamics Study of a MARTINI Coarse-Grained Polystyrene Brush in Good Solvent: Structure and Dynamics, Macromolecules, 45(1), pp.563-571, ISSN: 0024-9297. DOI: 10.1021/ma201980k.

Granato, E, Ramos, JAP, Achim, CV, Lehikoinen, J, Ying, SC, Ala-Nissila, T, Elder, KR (2011) Glassy phases and driven response of the phase-field-crystal model with random pinning, Physical Review E, 84(3), 031102, ISSN: 1539-3755. DOI: 10.1103/physreve.84.031102.

Rossi, G, Giannakopoulos, I, Monticelli, L, Rostedt, NKJ, Puisto, SR, Lowe, C, Taylor, AC, Vattulainen, I, Ala-Nissila, T (2011) A MARTINI Coarse-Grained Model of a Thermoset Polyester Coating, Macromolecules, 44(15), pp.6198-6208, ISSN: 0024-9297. DOI: 10.1021/ma200788a.

Ikonen, T, Khandkar, MD, Chen, LY, Ying, SC, Ala-Nissila, T (2011) Diffusion in periodic potentials with path integral hyperdynamics, Physical Review E, 84(2), 026703, ISSN: 1539-3755. DOI: 10.1103/physreve.84.026703.

Buyukdagli, S, Achim, CV, Ala-Nissila, T (2011) Ion size effects upon ionic exclusion from dielectric interfaces and slit nanopores, Journal of Statistical Mechanics: Theory and Experiment, 2011(05), pp.P05033-P05033, DOI: 10.1088/1742-5468/2011/05/p05033.

Dias, CL, Hynninen, T, Ala-Nissila, T, Foster, AS, Karttunen, M (2011) Hydrophobicity within the three-dimensional Mercedes-Benz model: Potential of mean force, The Journal of Chemical Physics, 134(6), pp.065106-065106, ISSN: 0021-9606. DOI: 10.1063/1.3537734.

Ollila, STT, Denniston, C, Karttunen, M, Ala-Nissila, T (2011) Fluctuating lattice-Boltzmann model for complex fluids, The Journal of Chemical Physics, 134(6), pp.064902-064902, ISSN: 0021-9606. DOI: 10.1063/1.3544360.

Lörscher, C, Ala-Nissila, T, Bhattacharya, A (2011) Polymer translocation induced by a bad solvent, Physical Review E, 83(1), 011914, ISSN: 1539-3755. DOI: 10.1103/physreve.83.011914.

Rossi, G, Monticelli, L, Puisto, SR, Vattulainen, I, Ala-Nissila, T (2011) Coarse-graining polymers with the MARTINI force-field: polystyrene as a benchmark case, Soft Matter, 7(2), pp.698-708, ISSN: 1744-683X. DOI: 10.1039/c0sm00481b.

Jaatinen, A and Ala-Nissila, T (2010) Eighth-order phase-field-crystal model for two-dimensional crystallization, Physical Review E, 82(6), 061602, ISSN: 1539-3755. DOI: 10.1103/physreve.82.061602.

Shin, J, Ikonen, T, Khandkar, MD, Ala-Nissila, T, Sung, W (2010) Polymer escape from a metastable Kramers potential: Path integral hyperdynamics study, The Journal of Chemical Physics, 133(18), pp.184902-184902, ISSN: 0021-9606. DOI: 10.1063/1.3493292.

Hynninen, T, Heinonen, V, Dias, CL, Karttunen, M, Foster, AS, Ala-Nissila, T (2010) Cutting Ice: Nanowire Regelation, Physical Review Letters, 105(8), 086102, ISSN: 0031-9007. DOI: 10.1103/physrevlett.105.086102.

Dias, CL, Ala-Nissila, T, Wong-ekkabut, J, Vattulainen, I, Grant, M, Karttunen, M (2010) Reply to the comment by Graziano on “The hydrophobic effect and its role in cold denaturation”, Cryobiology, 60(3), pp.356-357, ISSN: 0011-2240. DOI: 10.1016/j.cryobiol.2010.03.006.

Jaatinen, A and Ala-Nissila, T (2010) Extended phase diagram of the three-dimensional phase field crystal model, Journal of Physics: Condensed Matter, 22(20), pp.205402-205402, ISSN: 0953-8984. DOI: 10.1088/0953-8984/22/20/205402.

Dias, CL, Ala-Nissila, T, Wong-ekkabut, J, Vattulainen, I, Grant, M, Karttunen, M (2010) The hydrophobic effect and its role in cold denaturation, Cryobiology, 60(1), pp.91-99, ISSN: 0011-2240. DOI: 10.1016/j.cryobiol.2009.07.005.

Jalkanen, J, Rossi, G, Trushin, O, Granato, E, Ala-Nissila, T, Ying, S-C (2010) Stress release mechanisms for Cu on Pd(111) in the submonolayer and monolayer regimes, Physical Review B, 81(4), 041412, ISSN: 1098-0121. DOI: 10.1103/physrevb.81.041412.

Ramos, JAP, Granato, E, Ying, SC, Achim, CV, Elder, KR, Ala-Nissila, T (2010) Dynamical transitions and sliding friction of the phase-field-crystal model with pinning, Physical Review E, 81(1), 011121, ISSN: 1539-3755. DOI: 10.1103/physreve.81.011121.

Luo, K, Ala-Nissila, T, Ying, S-C, Metzler, R (2009) Driven polymer translocation through nanopores: Slow-vs.-fast dynamics, EPL (Europhysics Letters), 88(6), pp.68006-68006, ISSN: 0295-5075. DOI: 10.1209/0295-5075/88/68006.

Jaatinen, A, Achim, CV, Elder, KR, Ala-Nissila, T (2009) Thermodynamics of bcc metals in phase-field-crystal models, Physical Review E, 80(3), 031602, ISSN: 1539-3755. DOI: 10.1103/physreve.80.031602.

Luo, K, Metzler, R, Ala-Nissila, T, Ying, S-C (2009) Polymer translocation out of confined environments, Physical Review E, 80(2), 021907, ISSN: 1539-3755. DOI: 10.1103/physreve.80.021907.

Bhattacharya, A, Morrison, WH, Luo, K, Ala-Nissila, T, Ying, S-C, Milchev, A, Binder, K (2009) Scaling exponents of forced polymer translocation through a nanopore, The European Physical Journal E, 29(4), pp.423-429, ISSN: 1292-8941. DOI: 10.1140/epje/i2009-10495-5.

Tegze, G, Gránásy, L, Tóth, GI, Podmaniczky, F, Jaatinen, A, Ala-Nissila, T, Pusztai, T (2009) Diffusion-Controlled Anisotropic Growth of Stable and Metastable Crystal Polymorphs in the Phase-Field Crystal Model, Physical Review Letters, 103(3), 035702, ISSN: 0031-9007. DOI: 10.1103/physrevlett.103.035702.

Vehviläinen, T, Salo, P, Ala-Nissila, T, Ying, SC (2009) Electronic properties of H on vicinal Pt surfaces: First-principles study, Physical Review B, 80(3), 035403, ISSN: 1098-0121. DOI: 10.1103/physrevb.80.035403.

Ollila, STT, Luo, KF, Ala-Nissila, T, Ying, S-C (2009) Polymer translocation in a double-force arrangement, The European Physical Journal E, 28(4), pp.385-393, ISSN: 1292-8941. DOI: 10.1140/epje/i2008-10429-9.

Trushin, O, Jalkanen, J, Granato, E, Ying, SC, Ala-Nissila, T (2009) Atomistic studies of strain relaxation in heteroepitaxial systems, Journal of Physics: Condensed Matter, 21(8), pp.084211-084211, ISSN: 0953-8984. DOI: 10.1088/0953-8984/21/8/084211.

Achim, CV, Ramos, JAP, Karttunen, M, Elder, KR, Granato, E, Ala-Nissila, T, Ying, SC (2009) Nonlinear driven response of a phase-field crystal in a periodic pinning potential, Physical Review E, 79(1), 011606, ISSN: 1539-3755. DOI: 10.1103/physreve.79.011606.

Dias, CL, Ala-Nissila, T, Grant, M, Karttunen, M (2009) Three-dimensional “Mercedes-Benz” model for water, The Journal of Chemical Physics, 131(5), pp.054505-054505, ISSN: 0021-9606. DOI: 10.1063/1.3183935.

Luo, K, Ala-Nissila, T, Ying, S-C, Bhattacharya, A (2008) Translocation dynamics with attractive nanopore-polymer interactions, Physical Review E, 78(6), 061918, ISSN: 1539-3755. DOI: 10.1103/physreve.78.061918.

Luo, K, Ala-Nissila, T, Ying, S-C, Bhattacharya, A (2008) Dynamics of DNA translocation through an attractive nanopore, Physical Review E, 78(6), 061911, ISSN: 1539-3755. DOI: 10.1103/physreve.78.061911.

Luo, K, Ollila, STT, Huopaniemi, I, Ala-Nissila, T, Pomorski, P, Karttunen, M, Ying, S-C, Bhattacharya, A (2008) Dynamical scaling exponents for polymer translocation through a nanopore, Physical Review E, 78(5), 050901, ISSN: 1539-3755. DOI: 10.1103/physreve.78.050901.

Jalkanen, J, Trushin, O, Granato, E, Ying, SC, Ala-Nissila, T (2008) Equilibrium shape and size of supported heteroepitaxial nanoislands, The European Physical Journal B, 66(2), pp.175-183, ISSN: 1434-6028. DOI: 10.1140/epjb/e2008-00410-8.

Laurila, T, Pradas, M, Hernández-Machado, A, Ala-Nissila, T (2008) Influence of disorder strength on phase-field models of interfacial growth, Physical Review E, 78(3), 031603, ISSN: 1539-3755. DOI: 10.1103/physreve.78.031603.

Ramos, JAP, Granato, E, Achim, CV, Ying, SC, Elder, KR, Ala-Nissila, T (2008) Thermal fluctuations and phase diagrams of the phase-field crystal model with pinning, Physical Review E, 78(3), 031109, ISSN: 1539-3755. DOI: 10.1103/physreve.78.031109.

Dias, CL, Ala-Nissila, T, Karttunen, M, Vattulainen, I, Grant, M (2008) Microscopic Mechanism for Cold Denaturation, Physical Review Letters, 100(11), 118101, ISSN: 0031-9007. DOI: 10.1103/physrevlett.100.118101.

Luo, K, Ala-Nissila, T, Ying, S-C, Bhattacharya, A (2008) Sequence Dependence of DNA Translocation through a Nanopore, Physical Review Letters, 100(5), 058101, ISSN: 0031-9007. DOI: 10.1103/physrevlett.100.058101.

Jahma, MO, Koponen, IT, Ala-Nissila, T (2007) Optimal conditions for submonolayer nanoisland growth in ion beam assisted deposition, Surface Science, 601(23), pp.5628-5634, ISSN: 0039-6028. DOI: 10.1016/j.susc.2007.09.037.

Lehtola, V, Punkkinen, O, Ala-Nissila, T (2007) Polymer scaling and dynamics in steady-state sedimentation at infinite Péclet number, Physical Review E, 76(5), 051802, ISSN: 1539-3755. DOI: 10.1103/physreve.76.051802.

Luo, K, Ala-Nissila, T, Ying, S-C, Bhattacharya, A (2007) Influence of Polymer-Pore Interactions on Translocation, Physical Review Letters, 99(14), 148102, ISSN: 0031-9007. DOI: 10.1103/physrevlett.99.148102.

Rusanen, M, Koponen, IT, Ala-Nissila, T (2007) Reaction kinetic model of height selection in heteroepitaxial growth of quantum dots, The European Physical Journal B, 58(4), pp.405-409, ISSN: 1434-6028. DOI: 10.1140/epjb/e2007-00252-x.

Huopaniemi, I, Luo, K, Ala-Nissila, T, Ying, S-C (2007) Polymer translocation through a nanopore under a pulling force, Physical Review E, 75(6), 061912, ISSN: 1539-3755. DOI: 10.1103/physreve.75.061912.

Luo, K, Ala-Nissila, T, Ying, S-C, Bhattacharya, A (2007) Heteropolymer translocation through nanopores, The Journal of Chemical Physics, 126(14), pp.145101-145101, ISSN: 0021-9606. DOI: 10.1063/1.2719198.

Mašín, M, Vattulainen, I, Ala-Nissila, T, Chvoj, Z (2007) Interplay between steps and nonequilibrium effects in surface diffusion for a lattice-gas model of O∕W(110), The Journal of Chemical Physics, 126(11), pp.114705-114705, ISSN: 0021-9606. DOI: 10.1063/1.2713100.

Laurila, T, Tong, C, Majaniemi, S, Ala-Nissila, T (2006) Interface equations for capillary rise in random environment, Physical Review E, 74(4), 041601, ISSN: 1539-3755. DOI: 10.1103/physreve.74.041601.

Chvoj, Z, Mašín, M, Ala-Nissila, T (2006) Theoretical approaches to collective diffusion on stepped surfaces, Journal of Statistical Mechanics: Theory and Experiment, 2006(10), pp.P10003-P10003, DOI: 10.1088/1742-5468/2006/10/p10003.

Huopaniemi, I, Luo, K, Ala-Nissila, T, Ying, S-C (2006) Langevin dynamics simulations of polymer translocation through nanopores, The Journal of Chemical Physics, 125(12), pp.124901-124901, ISSN: 0021-9606. DOI: 10.1063/1.2357118.

Achim, CV, Karttunen, M, Elder, KR, Granato, E, Ala-Nissila, T, Ying, SC (2006) Phase diagram and commensurate-incommensurate transitions in the phase field crystal model with an external pinning potential, Physical Review E, 74(2), 021104, ISSN: 1539-3755. DOI: 10.1103/physreve.74.021104.

Karim, A, Al-Rawi, AN, Kara, A, Rahman, TS, Trushin, O, Ala-Nissila, T (2006) Diffusion of small two-dimensional Cu islands on Cu(111) studied with a kinetic Monte Carlo method, Physical Review B, 73(16), 165411, ISSN: 1098-0121. DOI: 10.1103/physrevb.73.165411.

Luo, K, Huopaniemi, I, Ala-Nissila, T, Ying, S-C (2006) Polymer translocation through a nanopore under an applied external field, The Journal of Chemical Physics, 124(11), pp.114704-114704, ISSN: 0021-9606. DOI: 10.1063/1.2179792.

Luo, K, Ala-Nissila, T, Ying, S-C (2006) Polymer translocation through a nanopore: A two-dimensional Monte Carlo study, The Journal of Chemical Physics, 124(3), pp.034714-034714, ISSN: 0021-9606. DOI: 10.1063/1.2161189.

Jahma, MO, Rusanen, M, Karim, A, Koponen, IT, Ala-Nissila, T, Rahman, TS (2005) Diffusion and submonolayer island growth during hyperthermal deposition on Cu(100) and Cu(111), Surface Science, 598(1-3), pp.246-252, ISSN: 0039-6028. DOI: 10.1016/j.susc.2005.09.030.

Luo, K, Kuittu, M-P, Tong, C, Majaniemi, S, Ala-Nissila, T (2005) Phase-field modeling of wetting on structured surfaces, The Journal of Chemical Physics, 123(19), pp.194702-194702, ISSN: 0021-9606. DOI: 10.1063/1.2102907.

Jalkanen, J, Trushin, O, Granato, E, Ying, SC, Ala-Nissila, T (2005) Publisher's Note: Equilibrium shape and dislocation nucleation in strained epitaxial nanoislands [Phys. Rev. B72, 081403(R) (2005)], Physical Review B, 72(8), 089903, ISSN: 1098-0121. DOI: 10.1103/physrevb.72.089903.

Jalkanen, J, Trushin, O, Granato, E, Ying, SC, Ala-Nissila, T (2005) Equilibrium shape and dislocation nucleation in strained epitaxial nanoislands, Physical Review B, 72(8), 081403, ISSN: 1098-0121. DOI: 10.1103/physrevb.72.081403.

Laurila, T, Tong, C, Huopaniemi, I, Majaniemi, S, Ala-Nissila, T (2005) Dynamics and kinetic roughening of interfaces in two-dimensional forced wetting, The European Physical Journal B, 46(4), pp.553-561, ISSN: 1434-6028. DOI: 10.1140/epjb/e2005-00288-x.

Mašín, M, Vattulainen, I, Ala-Nissila, T, Chvoj, Z (2005) Nonequilibrium effects in diffusion of interacting particles on vicinal surfaces, The Journal of Chemical Physics, 122(21), pp.214728-214728, ISSN: 0021-9606. DOI: 10.1063/1.1924695.

Lu, Y, Przybylski, M, Trushin, O, Wang, WH, Barthel, J, Granato, E, Ying, SC, Ala-Nissila, T (2005) Strain Relief in Cu-Pd Heteroepitaxy, Physical Review Letters, 94(14), 146105, ISSN: 0031-9007. DOI: 10.1103/physrevlett.94.146105.

Punkkinen, O, Falck, E, Vattulainen, I, Ala-Nissila, T (2005) Dynamics and scaling of polymers in a dilute solution:  Analytical treatment in two and higher dimensions, The Journal of Chemical Physics, 122(9), pp.094904-094904, ISSN: 0021-9606. DOI: 10.1063/1.1855876.

Chvoj, Z, Lahtinen, JM, Ala-Nissila, T (2004) Theory of collective diffusion in two-dimensional colloidal suspensions, Journal of Statistical Mechanics: Theory and Experiment, 2004(11), pp.P11005-P11005, DOI: 10.1088/1742-5468/2004/11/p11005.

Kuusela, E, Lahtinen, JM, Ala-Nissila, T (2004) Sedimentation dynamics of spherical particles in confined geometries, Physical Review E, 69(6), 066310, ISSN: 1539-3755. DOI: 10.1103/physreve.69.066310.

Karim, A, Rusanen, M, Koponen, IT, Ala-Nissila, T, Rahman, TS (2004) Fluctuations of surface steps in equilibrium: a kinetic Monte Carlo study, Surface Science, 554(2-3), pp.L113-L119, ISSN: 0039-6028. DOI: 10.1016/j.susc.2003.12.041.

Falck, E, Lahtinen, JM, Vattulainen, I, Ala-Nissila, T (2004) Influence of hydrodynamics on many-particle diffusion in 2D colloidal suspensions, The European Physical Journal E, 13(3), pp.267-275, ISSN: 1292-8941. DOI: 10.1140/epje/i2003-10075-9.

Koponen, IT, Jahma, MO, Rusanen, M, Ala-Nissila, T (2004) Submonolayer Growth with Anomalously High Island Density in Hyperthermal Deposition, Physical Review Letters, 92(8), 086103, ISSN: 0031-9007. DOI: 10.1103/physrevlett.92.086103.

Trushin, OS, Salo, P, Ala-Nissila, T, Ying, SC (2004) Searching for transition paths in multidimensional space with a fixed repulsive bias potential, Physical Review B, 69(3), 033405, ISSN: 1098-0121. DOI: 10.1103/physrevb.69.033405.

Kuusela, E, Lahtinen, JM, Ala-Nissila, T (2004) Origin of non-Gaussian velocity distributions in steady-state sedimentation, Europhysics Letters (EPL), 65(1), pp.13-19, ISSN: 0295-5075. DOI: 10.1209/epl/i2003-10045-y.

Falck, E, Punkkinen, O, Vattulainen, I, Ala-Nissila, T (2003) Publisher’s Note: Dynamics and scaling of two-dimensional polymers in a dilute solution [Phys. Rev. E68, 050102 (2003)], Physical Review E, 68(5), 059903, ISSN: 1063-651X. DOI: 10.1103/physreve.68.059903.

Bădescu, ŞC, Jacobi, K, Wang, Y, Bedürftig, K, Ertl, G, Salo, P, Ala-Nissila, T, Ying, SC (2003) Publisher’s Note: Vibrational states of a H monolayer on the Pt(111) surface [Phys. Rev. B68, 205401 (2003)], Physical Review B, 68(20), 209903, ISSN: 0163-1829. DOI: 10.1103/physrevb.68.209903.

Falck, E, Punkkinen, O, Vattulainen, I, Ala-Nissila, T (2003) Dynamics and scaling of two-dimensional polymers in a dilute solution, Physical Review E, 68(5), 050102, ISSN: 1063-651X. DOI: 10.1103/physreve.68.050102.

Bădescu, ŞC, Jacobi, K, Wang, Y, Bedürftig, K, Ertl, G, Salo, P, Ala-Nissila, T, Ying, SC (2003) Vibrational states of a H monolayer on the Pt(111) surface, Physical Review B, 68(20), 205401, ISSN: 0163-1829. DOI: 10.1103/physrevb.68.205401.

Falck, E, Punkkinen, O, Vattulainen, I, Ala-Nissila, T (2003) Dynamics and scaling of two-dimensional polymers in a dilute solution, Physical Review E - Statistical, Nonlinear, and Soft Matter Physics, 68(5 1), pp.501021-501024, ISSN: 1063-651X.

Falck, E, Punkkinen, O, Vattulainen, I, Ala-Nissila, T (2003) Erratum: Dynamics and scaling of two-dimensional polymers in a dilute solution (Physical Review E (2003) 68 (050102), Physical Review E - Statistical, Nonlinear, and Soft Matter Physics, 68(5 2), p.599031, ISSN: 1063-651X.

Masín, M (2003) Diffusion and mobility of interacting particles on stepped surfaces, Surface Science, 544(2-3), pp.L703-L708, ISSN: 0039-6028. DOI: 10.1016/j.susc.2003.07.014.

Trushin, O, Granato, E, Ying, SC, Salo, P, Ala-Nissila, T (2003) Energetics and atomic mechanisms of dislocation nucleation in strained epitaxial layers, Physical Review B, 68(15), 155413, ISSN: 0163-1829. DOI: 10.1103/physrevb.68.155413.

Cai, L, Zheng, C, Man, KL, Altman, MS, Granato, E, Ala-Nissila, T, Ying, SC, Xiao, X (2003) Step effects on diffusion near a substrate reconstructive phase transition: H on W(100), Physical Review B, 68(7), 075422, ISSN: 0163-1829. DOI: 10.1103/physrevb.68.075422.

Mašín, M, Vattulainen, I, Ala-Nissila, T, Chvoj, Z (2003) Non-equilibrium effects in profile spreading on stepped surfaces, Surface Science, 529(3), pp.L256-L262, ISSN: 0039-6028. DOI: 10.1016/s0039-6028(03)00268-1.

Kuusela, E, Lahtinen, JM, Ala-Nissila, T (2003) Erratum: Collective effects in settling of spheroids under steady-state sedimentation (Phys. Rev. Lett. (2003) 90 (094502), Physical Review Letters, 90(11), ISSN: 0031-9007.

Kuusela, E, Lahtinen, JM, Ala-Nissila, T (2003) Publisher’s Note: Collective Effects in Settling of Spheroids under Steady-State Sedimentation [Phys. Rev. Lett.PRLTAO0031-900790, 094502 (2003)], Physical Review Letters, 90(11), 119901, ISSN: 0031-9007. DOI: 10.1103/physrevlett.90.119901.

Kuusela, E, Lahtinen, JM, Ala-Nissila, T (2003) Collective Effects in Settling of Spheroids under Steady-State Sedimentation, Physical Review Letters, 90(9), 094502, ISSN: 0031-9007. DOI: 10.1103/physrevlett.90.094502.

Asikainen, J, Heinonen, J, Ala-Nissila, T (2002) Exact and efficient discrete random walk method for time-dependent two-dimensional environments, Physical Review E, 66(6), 066706, ISSN: 1063-651X. DOI: 10.1103/physreve.66.066706.

Asikainen, J, Majaniemi, S, Dubé, M, Heinonen, J, Ala-Nissila, T (2002) Dynamical scaling and kinetic roughening of single valued fronts propagating in fractal media, The European Physical Journal B, 30(2), pp.253-263, ISSN: 1434-6028. DOI: 10.1140/epjb/e2002-00350-3.

Nikunen, P, Vattulainen, I, Ala-Nissila, T (2002) Effects of quenched impurities on surface diffusion, spreading, and ordering of O/W(110), The Journal of Chemical Physics, 117(14), pp.6757-6765, ISSN: 0021-9606. DOI: 10.1063/1.1505856.

Trushin, O, Granato, E, Ying, SC, Salo, P, Ala-Nissila, T (2002) Minimum energy paths for dislocation nucleation in strained epitaxial layers, Physical Review B, 65(24), 241408, ISSN: 0163-1829. DOI: 10.1103/physrevb.65.241408.

Asikainen, J, Majaniemi, S, Dubé, M, Ala-Nissila, T (2002) Interface dynamics and kinetic roughening in fractals, Physical Review E, 65(5), 052104, ISSN: 1063-651X. DOI: 10.1103/physreve.65.052104.

Cai, L, Altman, MS, Granato, E, Ala-Nissila, T, Ying, SC, Xiao, X (2002) Surface Diffusion Anomaly near a Substrate Phase Transition: H onW(100), Physical Review Letters, 88(22), 226105, ISSN: 0031-9007. DOI: 10.1103/physrevlett.88.226105.

Lahtinen, JM, Mašı́n, M, Laurila, T, Ala-Nissila, T, Chvoj, Z (2002) Many-particle diffusion in continuum: Influence of a periodic surface potential, The Journal of Chemical Physics, 116(17), pp.7666-7672, ISSN: 0021-9606. DOI: 10.1063/1.1467908.

Ala-Nissila, T, Ferrando, R, Ying, SC (2002) Collective and single particle diffusion on surfaces, Advances in Physics, 51(3), pp.949-1078, ISSN: 0001-8732. DOI: 10.1080/00018730110107902.

Chen, LY, Ying, SC, Ala-Nissila, T (2002) Finding transition paths and rate coefficients through accelerated Langevin dynamics, Physical Review E, 65(4), 042101, ISSN: 1063-651X. DOI: 10.1103/physreve.65.042101.

Bădescu, ŞC, Salo, P, Ala-Nissila, T, Ying, SC, Jacobi, K, Wang, Y, Bedürftig, K, Ertl, G (2002) Energetics and Vibrational States for Hydrogen on Pt(111), Physical Review Letters, 88(13), 136101, ISSN: 0031-9007. DOI: 10.1103/physrevlett.88.136101.

Rusanen, M, Koponen, IT, Ala-Nissila, T, Ghosh, C, Rahman, TS (2002) Morphology of ledge patterns during step flow growth of metal surfaces vicinal to fcc (001), Physical Review B, 65(4), 041404, ISSN: 0163-1829. DOI: 10.1103/physrevb.65.041404.

Dubé, M, Majaniemi, S, Rost, M, Alava, MJ, Elder, KR, Ala-Nissila, T (2001) Interface pinning in spontaneous inhibition, Physical Review E - Statistical, Nonlinear, and Soft Matter Physics, 64(5 I), ISSN: 1539-3755.

Dubé, M, Majaniemi, S, Rost, M, Alava, MJ, Elder, KR, Ala-Nissila, T (2001) Interface pinning in spontaneous imbibition, Physical Review E, 64(5), 051605, ISSN: 1063-651X. DOI: 10.1103/physreve.64.051605.

Salo, P, Hirvonen, J, Koponen, IT, Trushin, OS, Heinonen, J, Ala-Nissila, T (2001) Role of concerted atomic movements on the diffusion of small islands on fcc(100) metal surfaces, Physical Review B, 64(16), 161405, ISSN: 0163-1829. DOI: 10.1103/physrevb.64.161405.

Myllys, M, Maunuksela, J, Alava, M, Ala-Nissila, T, Merikoski, J, Timonen, J (2001) Kinetic roughening in slow combustion of paper, Physical Review E - Statistical, Nonlinear, and Soft Matter Physics, 64(3 II), pp.361011-3610112, ISSN: 1539-3755.

Myllys, M, Maunuksela, J, Alava, M, Ala-Nissila, T, Merikoski, J, Timonen, J (2001) Kinetic roughening in slow combustion of paper, Physical Review E, 64(3), 036101, ISSN: 1063-651X. DOI: 10.1103/physreve.64.036101.

Lahtinen, JM, Hjelt, T, Ala-Nissila, T, Chvoj, Z (2001) Diffusion of hard disks and rodlike molecules on surfaces, Physical Review E, 64(2), 021204, ISSN: 1063-651X. DOI: 10.1103/physreve.64.021204.

Rusanen, M, Koponen, IT, Heinonen, J, Ala-Nissila, T (2001) Instability and Wavelength Selection during Step Flow Growth of Metal Surfaces Vicinal to fcc(001), Physical Review Letters, 86(23), pp.5317-5320, ISSN: 0031-9007. DOI: 10.1103/physrevlett.86.5317.

Dubé, M, Rost, M, Elder, K, Alava, M, Majaniemi, S, Ala-Nissila, T (2001) Comment on “Pipe Network Model for Scaling of Dynamic Interfaces in Porous Media”, Physical Review Letters, 86(26), pp.6046-6046, ISSN: 0031-9007. DOI: 10.1103/physrevlett.86.6046.

Badescu, SC, Ying, SC, Ala-Nissila, T (2001) Quantum Diffusion ofH/Ni(111)through a Monte Carlo Wave Function Formalism, Physical Review Letters, 86(22), pp.5092-5095, ISSN: 0031-9007. DOI: 10.1103/physrevlett.86.5092.

Kuusela, E and Ala-Nissila, T (2001) Velocity correlations and diffusion during sedimentation, Physical Review E, 63(6), 061505, ISSN: 1063-651X. DOI: 10.1103/physreve.63.061505.

Nikunen, P, Vattulainen, I, Ala-Nissila, T (2001) Density profile evolution and nonequilibrium effects in partial and full spreading measurements of surface diffusion, The Journal of Chemical Physics, 114(14), pp.6335-6342, ISSN: 0021-9606. DOI: 10.1063/1.1355765.

Kuusela, E and Ala-Nissila, T (2001) Velocity correlations and diffusion during sedimentation, Physical Review E - Statistical Physics, Plasmas, Fluids, and Related Interdisciplinary Topics, 63(6), ISSN: 1063-651X. DOI: 10.1103/PhysRevE.63.061505.

Vattulainen, I, Hjelt, T, Ala-Nissila, T, Ying, SC (2000) Nonexponential decay of velocity correlations in surface diffusion: The role of interactions and ordering, The Journal of Chemical Physics, 113(22), pp.10284-10292, ISSN: 0021-9606. DOI: 10.1063/1.1322654.

Granato, E, Ala-Nissila, T, Ying, SC (2000) Anomalous sliding friction and peak effect near the flux lattice melting transition, Physical Review B, 62(17), pp.11834-11837, ISSN: 0163-1829. DOI: 10.1103/physrevb.62.11834.

Vattulainen, I, Merikoski, J, Ying, SC, Ala-Nissila, T (2000) Comment on “Finite-size scaling behavior of the tracer surface diffusion coefficient near a second-order phase transition” by F. Nieto et al., Europhysics Letters (EPL), 51(3), pp.361-362, ISSN: 0295-5075. DOI: 10.1209/epl/i2000-00344-9.

Trushin, OS, Salo, P, Ala-Nissila, T (2000) Energetics and many-particle mechanisms of two-dimensional cluster diffusion on Cu(100) surfaces, Physical Review B, 62(3), pp.1611-1614, ISSN: 0163-1829. DOI: 10.1103/physrevb.62.1611.

Kallunki, J, Dubé, M, Ala-Nissila, T (2000) Adatom dynamics in a periodic potential under time-periodic bias, Surface Science, 460(1-3), pp.39-48, ISSN: 0039-6028. DOI: 10.1016/s0039-6028(00)00490-8.

Dubé, M, Rost, M, Elder, KR, Alava, M, Majaniemi, S, Ala-Nissila, T (2000) Conserved dynamics and interface roughening in spontaneous imbibition: A phase field model, The European Physical Journal B, 15(4), pp.701-714, ISSN: 1434-6028. DOI: 10.1007/s100510051175.

Vesala, T, Sevanto, S, Paatero, P, Nikinmaa, E, Peramaki, M, Ala-Nissila, T, Kaariainen, J, Virtanen, H, Irvine, J, Grace, J (2000) Do tree stems shrink and swell with the tides?, Tree Physiology, 20(9), pp.633-635, ISSN: 0829-318X. DOI: 10.1093/treephys/20.9.633.

Hjelt, T and Ala-Nissila, T (2000) Diffusion of end-grafted chain-like molecules on surfaces, Surface Science, 454-456, pp.562-565, ISSN: 0039-6028. DOI: 10.1016/s0039-6028(00)00244-2.

Provatas, N, Haataja, M, Asikainen, J, Majaniemi, S, Alava, M, Ala-Nissila, T (2000) Fiber deposition models in two and three spatial dimensions, Colloids and Surfaces A: Physicochemical and Engineering Aspects, 165(1-3), pp.209-229, ISSN: 0927-7757. DOI: 10.1016/s0927-7757(99)00417-3.

Lahtinen, JM, Hjelt, T, Ala-Nissila, T (2000) Diffusive spreading of rodlike molecules on surfaces, Surface Science, 454-456, pp.598-601, ISSN: 0039-6028. DOI: 10.1016/s0039-6028(00)00132-1.

Asikainen, J and Ala-Nissila, T (2000) Percolation and spatial correlations in a two-dimensional continuum deposition model, Physical Review E, 61(5), pp.5002-5008, ISSN: 1063-651X. DOI: 10.1103/physreve.61.5002.

Hjelt, T, Vattulainen, I, Ala-Nissila, T, Ying, SC (2000) Velocity correlations and memory functions in surface diffusion, Surface Science, 449(1-3), pp.L255-L262, ISSN: 0039-6028. DOI: 10.1016/s0039-6028(00)00122-9.

Myllys, M, Maunuksela, J, Alava, MJ, Ala-Nissila, T, Timonen, J (2000) Scaling and Noise in Slow Combustion of Paper, Physical Review Letters, 84(9), pp.1946-1949, ISSN: 0031-9007. DOI: 10.1103/physrevlett.84.1946.

Nikunen, P, Vattulainen, I, Ala-Nissila, T (2000) Non-equilibrium effects in profile evolution measurements of surface diffusion, Surface Science, 447(1-3), pp.L162-L168, ISSN: 0039-6028. DOI: 10.1016/s0039-6028(99)01204-2.

Asikainen, J and Ala-Nissila, T (2000) Percolation and spatial correlations in a two-dimensional continuum deposition model, Physical Review E - Statistical Physics, Plasmas, Fluids, and Related Interdisciplinary Topics, 61(5), pp.5002-5008, ISSN: 1063-651X. DOI: 10.1103/PhysRevE.61.5002.

Vattulainen, I, Ying, SC, Ala-Nissila, T, Merikoski, J (1999) Comment on “Surface diffusion near the points corresponding to continuous phase transitions” [J. Chem. Phys. 109, 3197 (1998)], The Journal of Chemical Physics, 111(24), pp.11232-11233, ISSN: 0021-9606. DOI: 10.1063/1.480479.

Kallunki, J, Dubé, M, Ala-Nissila, T (1999) Stochastic resonance and diffusion in periodic potentials, Journal of Physics: Condensed Matter, 11(49), pp.9841-9849, ISSN: 0953-8984. DOI: 10.1088/0953-8984/11/49/301.

Dubé, M, Rost, M, Elder, KR, Alava, M, Majaniemi, S, Ala-Nissila, T (1999) Liquid Conservation and Nonlocal Interface Dynamics in Imbibition, Physical Review Letters, 83(8), pp.1628-1631, ISSN: 0031-9007. DOI: 10.1103/physrevlett.83.1628.

Salmi, MA, Alatalo, M, Ala-Nissila, T, Nieminen, RM (1999) Energetics and diffusion paths of gallium and arsenic adatoms on flat and stepped GaAs(001) surfaces, Surface Science, 425(1), pp.31-47, ISSN: 0039-6028. DOI: 10.1016/s0039-6028(99)00180-6.

Maunuksela, J, Myllys, M, Timonen, J, Alava, MJ, Ala-Nissila, T (1999) Kardar–Parisi–Zhang scaling in kinetic roughening of fire fronts, Physica A: Statistical Mechanics and its Applications, 266(1-4), pp.372-376, ISSN: 0378-4371. DOI: 10.1016/s0378-4371(98)00619-0.

Heinonen, J, Koponen, I, Merikoski, J, Ala-Nissila, T (1999) Island Diffusion on Metal fcc (100) Surfaces, Physical Review Letters, 82(13), pp.2733-2736, ISSN: 0031-9007. DOI: 10.1103/physrevlett.82.2733.

Vattulainen, I, Ying, SC, Ala-Nissila, T, Merikoski, J (1999) Memory effects and coverage dependence of surface diffusion in a model adsorption system, Physical Review B, 59(11), pp.7697-7707, ISSN: 0163-1829. DOI: 10.1103/physrevb.59.7697.

Kuittu, M-P, Haataja, M, Ala-Nissila, T (1999) Dynamics of driven interfaces in algebraically correlated random media, Physical Review E, 59(3), pp.2677-2682, ISSN: 1063-651X. DOI: 10.1103/physreve.59.2677.

Kuittu, M-P, Haataja, M, Provatas, N, Ala-Nissila, T (1999) Erratum: Dynamics of driven interfaces near isotropic percolation transition [Phys. Rev. E58, 1514 (1998)], Physical Review E, 59(3), pp.3774-3775, ISSN: 1063-651X. DOI: 10.1103/physreve.59.3774.2.

Kuittu, MP, Haataja, M, Ala-Nissila, T (1999) Dynamics of driven interfaces in algebraically correlated random media, Physical Review E - Statistical Physics, Plasmas, Fluids, and Related Interdisciplinary Topics, 59(3), pp.2677-2682, ISSN: 1063-651X. DOI: 10.1103/PhysRevE.59.2677.

Kuittu, M-P, Haataja, M, Provatas, N, Ala-Nissila, T (1998) Dynamics of driven interfaces near isotropic percolation transition, Physical Review E, 58(2), pp.1514-1520, ISSN: 1063-651X. DOI: 10.1103/physreve.58.1514.

Ying, SC, Vattulainen, I, Merikoski, J, Hjelt, T, Ala-Nissila, T (1998) Memory expansion for diffusion coefficients, Physical Review B, 58(4), pp.2170-2178, ISSN: 0163-1829. DOI: 10.1103/physrevb.58.2170.

Vinnurva, J, Alava, M, Ala-Nissila, T, Krug, J (1998) Kinetic roughening in fiber deposition, Physical Review E, 58(1), pp.1125-1131, ISSN: 1063-651X. DOI: 10.1103/physreve.58.1125.

Maunuksela, J, Myllys, M, Timonen, J, Kuittu, M, Ala-Nissila, T, Alava, MJ, Provatas, N (1998) Maunukselaet al.Reply:, Physical Review Letters, 80(25), pp.5707-5707, ISSN: 0031-9007. DOI: 10.1103/physrevlett.80.5707.

Vattulainen, I, Merikoski, J, Ala-Nissila, T, Ying, SC (1998) Vattulainenet al.Reply:, Physical Review Letters, 80(24), pp.5456-5456, ISSN: 0031-9007. DOI: 10.1103/physrevlett.80.5456.

Ala-Nissila, T (1998) Erratum: Comment on “Upper Critical Dimension of the Kardar-Parisi-Zhang Equation” [Phys. Rev. Lett. 80, 887 (1998)], Physical Review Letters, 80(24), pp.5459-5459, ISSN: 0031-9007. DOI: 10.1103/physrevlett.80.5459.

Heinonen, J, Bukharev, I, Ala-Nissila, T, Kosterlitz, JM (1998) Simple model for anisotropic step growth, Physical Review E, 57(6), pp.6851-6858, ISSN: 1063-651X. DOI: 10.1103/physreve.57.6851.

Hjelt, T, Vattulainen, I, Merikoski, J, Ala-Nissila, T, Ying, SC (1998) Dynamical mean field theory: an efficient method to study surface diffusion coefficients, Surface Science, 402-404, pp.253-256, ISSN: 0039-6028. DOI: 10.1016/s0039-6028(97)00966-7.

Hjelt, T, Herminghaus, S, Ala-Nissila, T, Ying, S (1998) Dynamics of chainlike molecules on surfaces, Physical Review E, 57(2), pp.1864-1872, ISSN: 1063-651X. DOI: 10.1103/physreve.57.1864.

Ala-Nissila, T (1998) Comment on “Upper Critical Dimension of the Kardar-Parisi-Zhang Equation”, Physical Review Letters, 80(4), pp.887-887, ISSN: 0031-9007. DOI: 10.1103/physrevlett.80.887.

Vattulainen, I, Merikoski, J, Ala-Nissila, T, Ying, SC (1998) Adatom dynamics and diffusion in a model of O/W(110), Physical Review B, 57(3), pp.1896-1907, ISSN: 0163-1829. DOI: 10.1103/physrevb.57.1896.

Karttunen, M, Grant, M, Ala-Nissila, T, Provatas, N (1998) Nucleation, Growth, and Scaling in Slow Combustion, Journal of Statistical Physics, 90(5/6), pp.1401-1411, ISSN: 0022-4715. DOI: 10.1023/a:1023243831128.

Kuittu, MP, Haataja, M, Provatas, N, Ala-Nissila, T (1998) Dynamics of driven interfaces near isotropic percolation transition, Physical Review E - Statistical Physics, Plasmas, Fluids, and Related Interdisciplinary Topics, 58(2), pp.1514-1520, ISSN: 1063-651X. DOI: 10.1103/PhysRevE.58.1514.

Merikoski, J, Vattulainen, I, Heinonen, J, Ala-Nissila, T (1997) Effect of kinks and concerted diffusion mechanisms on mass transport and growth on stepped metal surfaces, Surface Science, 387(1-3), pp.167-182, ISSN: 0039-6028. DOI: 10.1016/s0039-6028(97)00349-x.

Maunuksela, J, Myllys, M, Kähkönen, O-P, Timonen, J, Provatas, N, Alava, MJ, Ala-Nissila, T (1997) Kinetic Roughening in Slow Combustion of Paper, Physical Review Letters, 79(8), pp.1515-1518, ISSN: 0031-9007. DOI: 10.1103/physrevlett.79.1515.

Vattulainen, I, Merikoski, J, Ala-Nissila, T, Ying, SC (1997) Non-Arrhenius Behavior of Surface Diffusion near a Phase Transition Boundary, Physical Review Letters, 79(2), pp.257-260, ISSN: 0031-9007. DOI: 10.1103/physrevlett.79.257.

Hjelt, T, Vattulainen, I, Merikoski, J, Ala-Nissila, T, Ying, SC (1997) A dynamical mean field theory for the study of surface diffusion constants, Surface Science, 380(2-3), pp.L501-L505, ISSN: 0039-6028. DOI: 10.1016/s0039-6028(97)00005-8.

Provatas, N, Haataja, M, Seppa¨la¨, E, Majaniemi, S, Alava, M, Ala-Nissila, T (1997) Structural properties of disordered fibre networks, Physica A: Statistical Mechanics and its Applications, 239(1-3), pp.304-313, ISSN: 0378-4371. DOI: 10.1016/s0378-4371(97)00027-7.

Provatas, N, Haataja, M, Seppälä, E, Majaniemi, S, Åström, J, Alava, M, Ala-Nissila, T (1997) Growth, percolation, and correlations in disordered fiber networks, Journal of Statistical Physics, 87(1-2), pp.385-413, ISSN: 0022-4715. DOI: 10.1007/bf02181493.

Vattulainen, I, Merikoski, J, Ala-Nissila, T, Ying, SC (1996) Non-equilibrium surface diffusion in the system, Surface Science, 366(2), pp.L697-L702, ISSN: 0039-6028. DOI: 10.1016/0039-6028(96)00931-4.

Provatas, N, Alava, MJ, Ala-Nissila, T (1996) Density correlations in paper, Physical Review E, 54(1), pp.R36-R38, ISSN: 1063-651X. DOI: 10.1103/physreve.54.r36.

Ala-Nissila, T, Herminghaus, S, Hjelt, T, Leiderer, P (1996) Diffusive Spreading of Chainlike Molecules on Surfaces, Physical Review Letters, 76(21), pp.4003-4006, ISSN: 0031-9007. DOI: 10.1103/physrevlett.76.4003.

Haataja, M, Nieminen, JA, Ala-Nissila, T (1996) Dynamics of the spreading of chainlike molecules with asymmetric surface interactions, Physical Review E, 53(5), pp.5111-5122, ISSN: 1063-651X. DOI: 10.1103/physreve.53.5111.

Majaniemi, S, Ala-Nissila, T, Krug, J (1996) Kinetic roughening of surfaces: Derivation, solution, and application of linear growth equations, Physical Review B, 53(12), pp.8071-8082, ISSN: 0163-1829. DOI: 10.1103/physrevb.53.8071.

Provatas, N, Ala-Nissila, T, Alava, MJ (1996) Growth and Structure of Random Fibre Clusters and Cluster Networks [Phys. Rev. Lett. 75, 3556 (1995)], Physical Review Letters, 76(7), pp.1181-1181, ISSN: 0031-9007. DOI: 10.1103/physrevlett.76.1181.

Haataja, M, Nieminen, JA, Ala-Nissila, T (1996) Dynamics of the spreading of chainlike molecules with asymmetric surface interactions, Physical Review E - Statistical Physics, Plasmas, Fluids, and Related Interdisciplinary Topics, 53(5), pp.5111-5122, ISSN: 1063-651X. DOI: 10.1103/PhysRevE.53.5111.

Provatas, N, Ala-Nissila, T, Alava, MJ (1995) Growth and Structure of Random Fibre Clusters and Cluster Networks, Physical Review Letters, 75(19), pp.3556-3559, ISSN: 0031-9007. DOI: 10.1103/physrevlett.75.3556.

Provatas, N, Ala-Nissila, T, Grant, M, Elder, KR, Piché, L (1995) Scaling, propagation, and kinetic roughening of flame fronts in random media, Journal of Statistical Physics, 81(3-4), pp.737-759, ISSN: 0022-4715. DOI: 10.1007/bf02179255.

Merikoski, J and Ala-Nissila, T (1995) Diffusion processes and growth on stepped metal surfaces, Physical Review B, 52(12), pp.R8715-R8720, ISSN: 0163-1829. DOI: 10.1103/physrevb.52.r8715.

Haataja, M, Nieminen, JA, Ala-Nissila, T (1995) Molecular ordering of precursor films during spreading of tiny liquid droplets, Physical Review E, 52(3), pp.R2165-R2167, ISSN: 1063-651X. DOI: 10.1103/physreve.52.r2165.

Vattulainen, I, Ala-Nissila, T, Kankaala, K (1995) Physical models as tests of randomness, Physical Review E, 52(3), pp.3205-3214, ISSN: 1063-651X. DOI: 10.1103/physreve.52.3205.

Provatas, N, Ala-Nissila, T, Grant, M, Elder, KR, Piché, L (1995) Flame propagation in random media, Physical Review E, 51(5), pp.4232-4236, ISSN: 1063-651X. DOI: 10.1103/physreve.51.4232.

Vattulainen, I, Kankaala, K, Saarinen, J, Ala-Nissila, T (1995) A comparative study of some pseudorandom number generators, Computer Physics Communications, 86(3), pp.209-226, ISSN: 0010-4655. DOI: 10.1016/0010-4655(95)00015-8.

Vattulainen, I, Ala-Nissila, T, Kankaala, K (1994) Physical Tests for Random Numbers in Simulations, Physical Review Letters, 73(19), pp.2513-2516, ISSN: 0031-9007. DOI: 10.1103/physrevlett.73.2513.

Ala-Nissila, T, Granato, E, Kankaala, K, Kosterlitz, JM, Ying, S-C (1994) Numerical studies of the two-dimensionalXYmodel with symmetry-breaking fields, Physical Review B, 50(17), pp.12692-12701, ISSN: 0163-1829. DOI: 10.1103/physrevb.50.12692.

Venäläinen, O, Ala-Nissila, T, Kaski, K (1994) Simulations of solid-on-solid models of spreading of viscous droplets, Physica A: Statistical Mechanics and its Applications, 210(3-4), pp.362-375, ISSN: 0378-4371. DOI: 10.1016/0378-4371(94)90084-1.

Ala-Nissila, T and Venäläinen, O (1994) Scaling exponents for driven two-dimensional surface growth, Journal of Statistical Physics, 76(3-4), pp.1083-1088, ISSN: 0022-4715. DOI: 10.1007/bf02188700.

Nieminen, JA and Ala-Nissila, T (1994) Spreading dynamics of polymer microdroplets: A molecular-dynamics study, Physical Review E, 49(5), pp.4228-4236, ISSN: 1063-651X. DOI: 10.1103/physreve.49.4228.

Nieminen, JA and Ala-Nissila, T (1994) Dynamics of Spreading of Small Droplets of Chainlike Molecules on Surfaces, Europhysics Letters (EPL), 25(8), pp.593-598, ISSN: 0295-5075. DOI: 10.1209/0295-5075/25/8/006.

Venäläinen, O, Ala-Nissila, T, Kaski, K (1994) Morphological Changes of Small Viscous Droplets under Spreading, Europhysics Letters (EPL), 25(2), pp.125-130, ISSN: 0295-5075. DOI: 10.1209/0295-5075/25/2/008.

Kankaala, K, Ala-Nissila, T, Vattulainen, I (1993) Bit-level correlations in some pseudorandom number generators, Physical Review E, 48(6), pp.R4211-R4214, ISSN: 1063-651X. DOI: 10.1103/physreve.48.r4211.

Ala-Nissila, T, Hjelt, T, Kosterlitz, JM, Ven�l�inen, O (1993) Scaling exponents for kinetic roughening in higher dimensions, Journal of Statistical Physics, 72(1-2), pp.207-225, ISSN: 0022-4715. DOI: 10.1007/bf01048047.

Hernández-García, E, Ala-Nissila, T, Grant, M (1993) Interface Roughening with a Time-Varying External Driving Force, Europhysics Letters (EPL), 21(4), pp.401-406, ISSN: 0295-5075. DOI: 10.1209/0295-5075/21/4/004.

Kankaala, K, Ala-Nissila, T, Ying, S-C (1993) Theory of adsorbate-induced surface reconstruction on W(100), Physical Review B, 47(4), pp.2333-2343, ISSN: 0163-1829. DOI: 10.1103/physrevb.47.2333.

Ala-Nissila, T, Kjoll, J, Ying, SC (1992) Model of diffusion on deformable lattices. III. Adatom-interaction effects, Physical Review B, 46(2), pp.846-854, ISSN: 0163-1829. DOI: 10.1103/physrevb.46.846.

Ala-Nissila, T, Hjelt, T, Kosterlitz, JM (1992) Driven Growth in the Restricted Solid-On-Solid Model in Higher Dimensions, Europhysics Letters (EPL), 19(1), pp.1-5, ISSN: 0295-5075. DOI: 10.1209/0295-5075/19/1/001.

Ala-Nissila, T, Han, WK, Ying, SC (1992) Diffusion anomaly near structural phase transitions, Physical Review Letters, 68(12), pp.1866-1868, ISSN: 0031-9007. DOI: 10.1103/physrevlett.68.1866.

Ala-Nissila, T and Ying, SC (1992) Theory of classical surface diffusion, Progress in Surface Science, 39(3), pp.227-323, ISSN: 0079-6816. DOI: 10.1016/0079-6816(92)90017-c.

Kim, JM, Kosterlitz, JM, Ala-Nissila, T (1991) Surface growth and crossover behaviour in a restricted solid-on-solid model, Journal of Physics A: Mathematical and General, 24(23), pp.5569-5586, ISSN: 0305-4470. DOI: 10.1088/0305-4470/24/23/022.

Ala-Nissila, T, Kjoll, J, Ying, SC, Tahir-Kheli, RA (1991) Model for diffusion on deformable lattices. I. Collective diffusion, Physical Review B, 44(5), pp.2122-2132, ISSN: 0163-1829. DOI: 10.1103/physrevb.44.2122.

Ala-Nissila, T, Kjoll, J, Ying, SC, Tahir-Kheli, RA (1991) Model for diffusion on deformable lattices. II. Tracer diffusion, Physical Review B, 44(5), pp.2133-2141, ISSN: 0163-1829. DOI: 10.1103/physrevb.44.2133.

Ala-Nissila, T and Ying, SC (1990) Microscopic theory of surface diffusion, Physical Review B, 42(16), pp.10264-10274, ISSN: 0163-1829. DOI: 10.1103/physrevb.42.10264.

Ala-Nissila, T, Granato, E, Ying, SC (1990) Anomalous diffusion near the flux lattice melting transition in high-T_csuperconductors, Journal of Physics: Condensed Matter, 2(42), pp.8537-8541, ISSN: 0953-8984. DOI: 10.1088/0953-8984/2/42/029.

Ala-Nissila, T and Ying, SC (1990) Microscopic theory of diffusion on lattices with local distortion, Surface Science, 235(2-3), pp.L341-L347, ISSN: 0039-6028. DOI: 10.1016/0039-6028(90)90785-7.

Ala-Nissila, T and Ying, SC (1990) Universal properties of classical surface diffusion, Physical Review Letters, 65(7), pp.879-882, ISSN: 0031-9007. DOI: 10.1103/physrevlett.65.879.

Kim, JM, Ala-Nissila, T, Kosterlitz, JM (1990) Comment on ‘‘Phase transition in a restricted solid-on-solid surface-growth model in 2+1 dimensions’’, Physical Review Letters, 64(19), pp.2333-2333, ISSN: 0031-9007. DOI: 10.1103/physrevlett.64.2333.

Kankaala, K, Ala-Nissila, T, Ying, SC (1990) Adsorbate Induced Surface Reconstruction on W(100), Physica Scripta, T33, pp.166-167, ISSN: 0031-8949. DOI: 10.1088/0031-8949/1990/t33/031.

Ala-Nissila, T, Han, WK, Ying, SC (1990) Vibrational excitations and adatom diffusion near the reconstruction transition of W(100), Journal of Electron Spectroscopy and Related Phenomena, 54-55, pp.245-253, ISSN: 0368-2048. DOI: 10.1016/0368-2048(90)80217-x.

Kjoll, J, Ala-Nissila, T, Ying, SC (1989) Diffusion anisotropy of oxygen and hydrogen adatoms on W(110), Surface Science, 218(2-3), pp.L476-L482, ISSN: 0039-6028. DOI: 10.1016/0039-6028(89)90148-9.

Ala-Nissila, T, Kankaala, K, Kaski, K (1989) A note on the kinetics of wetting transitions in two-dimensional lattice-gas systems, Journal of Physics A: Mathematical and General, 22(13), pp.2629-2634, ISSN: 0305-4470. DOI: 10.1088/0305-4470/22/13/055.

Kjoll, J, Ala-Nissila, T, Ying, SC (1989) Phase diagram of CO/Rh(111) at low coverages, Surface Science, 214(3), pp.448-465, ISSN: 0039-6028. DOI: 10.1016/0039-6028(89)90181-7.

Ala-Nissila, T and Gunton, JD (1988) Universal domain growth in a lattice-gas model of O/Pd(110), Physical Review B, 38(16), pp.11418-11431, ISSN: 0163-1829. DOI: 10.1103/physrevb.38.11418.

Ala-Nissila, T, Gunton, JD, Kaski, K (1988) Domain growth and topological defects in an Ising model with competing interactions, Physical Review B, 37(1), pp.179-195, ISSN: 0163-1829. DOI: 10.1103/physrevb.37.179.

Ala-Nissila, T and Ying, SC (1988) Theory of classical surface diffusion, Progress in Surface Science, 27(3), pp.161-237, ISSN: 0079-6816. DOI: 10.1016/0079-6816(88)90016-0.

Ala-Nissila, T and Gunton, JD (1987) The effect of a wetting transition on the growth of domains in an Ising model with competing interactions, Journal of Physics C: Solid State Physics, 20(19), pp.L387-L393, ISSN: 0022-3719. DOI: 10.1088/0022-3719/20/19/003.

Ala-Nissila, T, Chowdhury, D, Gunton, JD (1986) Models of hopping-controlled reactions with variable hopping range, Physical Review A, 34(5), pp.4251-4255, ISSN: 0556-2791. DOI: 10.1103/physreva.34.4251.

Ala-Nissila, T, Gunton, JD, Kaski, K (1986) Kinetics of the order-disorder transition of the two-dimensional anisotropic next-nearest-neighbor Ising model with Kawasaki dynamics, Physical Review B, 33(11), pp.7583-7593, ISSN: 0163-1829. DOI: 10.1103/physrevb.33.7583.

Saxena, A, Ala-Nissilä, T, Gunton, JD (1986) Phase transitions and diffraction of kinked vicinal surfaces, Surface Science, 171(1), pp.170-196, ISSN: 0039-6028. DOI: 10.1016/0039-6028(86)90569-8.

Saxena, A, Ala-Nissilä, T, Gunton, JD (1986) Structural phase transitions on stepped surfaces, Surface Science, 169(1), pp.L231-L236, ISSN: 0039-6028. DOI: 10.1016/0039-6028(86)90727-2.

Ala-Nissila, T, Amar, J, Gunton, JD (1986) Wetting in the two-dimensional ANNNI model, Journal of Physics A: Mathematical and General, 19(2), pp.L41-L47, ISSN: 0305-4470. DOI: 10.1088/0305-4470/19/2/004.

Kaski, K, Ala-Nissila, T, Gunton, JD (1985) Kinetics of the order-disorder transition of the two-dimensional anisotropic next-nearest-neighbor Ising model, Physical Review B, 31(1), pp.310-315, ISSN: 0163-1829. DOI: 10.1103/physrevb.31.310.

Conferences

Seyedheydari, F, Conley, K, Ylä-Oijala, P, Sihvola, A, Ala-Nissila, T (2022) Electromagnetic response and optical properties of spherical CuSbS₂ nanoparticles. In 2021 Photonics & Electromagnetics Research Symposium (PIERS); 2021 Photonics & Electromagnetics Research Symposium (PIERS), Hangzhou, China, pp.2573-2578, ISBN: 9781728172477. DOI: 10.1109/piers53385.2021.9694781.

Seyedheydari, F, Conley, K, Ala-Nissila, T (2019) Scattering by core-shell semiconductor microinclusions for plasmonically enhanced near-IR applications. In Zouhdi, S and Topa, A (ed) META 2019 Lisbon - Portugal: The 10th International Conference on Metamaterials, Photonic Crystals and Plasmonics, Lisboa, Portugal, pp.1547-1552.

Buschmann, MH, Azizian, R, Kempe, T, Juliá, JE, Martínez-Cuenca, R, Sundén, B, Wu, Z, Seppälä, A, Ala-Nissila, T (2019) On the proper interpretation of nanofluid convective heat transfer. In 16th International Heat Transfer Conference, International Heat Transfer Conference, Beijing, China, pp.2855-2862.

Conley, K, Thakore, V, Ala-Nissila, T (2018) Plasmonically enhanced spectrally-sensitive coatings for gradient heat flux sensors. In 2018 Progress in Electromagnetics Research Symposium (PIERS-Toyama 2018), Toyama, Japan,ISBN: 9781538654552. DOI: 10.23919/PIERS.2018.8597651.

Puupponen, S, Seppälä, A, Saari, K, Ala-Nissilä, T (2014) Preparation of paraffin and fatty acid nanofluids for heat transfer applications. In , 27th International Conference on Efficiency, Cost, Optimization, Simulation and Environmental Impact of Energy Systems, ECOS 2014,ISBN: 9781634391344.

Ramos, JAP, Granato, E, Ying, SC, Achim, CV, Elder, KR, Ala-Nissila, T (2010) Nonlinear response and dynamical transitions in a phase-field crystal model for adsorbed overlayers. In , Journal of Physics: Conference Series, pp.012024-012024, DOI: 10.1088/1742-6596/246/1/012024.

Jahma, MO, Koponen, IT, Ala-Nissila, T (2008) Optimal conditions for submonolayer nanoisland growth in ion beam assisted deposition. In , Journal of Physics: Conference Series, pp.072005-072005, DOI: 10.1088/1742-6596/100/7/072005.

Jalkanen, J, Trushin, O, Elder, K, Granato, E, Ying, SC, Ala-Nissilä, T (2008) Two approaches to dislocation nucleation in the supported heteroepitaxial equilibrium islanding phenomenon. In , Journal of Physics: Conference Series, pp.072043-072043, DOI: 10.1088/1742-6596/100/7/072043.

Achim, CV, Karttunen, M, Elder, KR, Granato, E, Ala-Nissila, T, Ying, SC (2008) Phase diagram of pinned lattices in the phase field crystal model. In , Journal of Physics: Conference Series, pp.072001-072001, DOI: 10.1088/1742-6596/100/7/072001.

Jalkanen, J, Trushin, O, Granato, E, Ying, SC, Ala-Nissila, T (2006) Shape transition and dislocation nucleation in strained epitaxial islands. In , Brazilian Journal of Physics, pp.328-331, DOI: 10.1590/s0103-97332006000300025.

Mašı́n, M, Vattulainen, I, Ala-Nissila, T, Chvoj, Z (2004) Diffusion and mobility of interacting particles on stepped surfaces along the ledges. In , Surface Science, pp.143-147, DOI: 10.1016/j.susc.2004.05.036.

Ala-Nissila, T, Majaniemi, S, Elder, K (2004) Phase-field modeling of dynamical interface phenomena in fluids. In , NOVEL METHODS IN SOFT MATTER SIMULATIONS, pp.357-388, ISBN: 3-540-20916-6.

Trushin, O, Granato, E, Ying, SC, Salo, P, Ala-Nissila, T (2002) Mechanisms of Dislocation Nucleation in Strained Epitaxial Layers. In , physica status solidi (b), pp.100-105, DOI: 10.1002/1521-3951(200207)232:1<100::aid-pssb100>3.0.co;2-t.

Heinonen, J, Koponen, IT, Salo, P, Ala-Nissila, T (2002) Time correlations and statistics of atomistic processes in island diffusion on fcc metal surfaces. In , Surface Science, pp.146-149, DOI: 10.1016/s0039-6028(02)01204-9.

Rusanen, M, Koponen, IT, Ala-Nissila, T (2002) Meandering instability of curved step edges on growth of a crystalline cone. In , Surface Science, pp.305-310, DOI: 10.1016/s0039-6028(02)01262-1.

Trushin, O, Granato, E, Ying, SC, Kosterlitz, JM, Ala-Nissila, T, Salo, P (2002) Surface instability and dislocation nucleation in strained epitaxial layers. In , Brazilian Journal of Physics, pp.369-371, DOI: 10.1590/s0103-97332002000200034.

Trushin, OS, Salo, P, Alatalo, M, Ala-Nissila, T (2001) Atomic mechanisms of cluster diffusion on metal fcc(1 0 0) surfaces. In , Surface Science, pp.365-369, DOI: 10.1016/s0039-6028(00)01013-x.

Hjelt, T, Vattulainen, I, Lahtinen, JM, Ala-Nissila, T, Ying, SC (2001) How to measure velocity correlations from surface diffusion experiments by STM. In , Surface Science, pp.381-385, DOI: 10.1016/s0039-6028(01)00940-2.

Falck, E, Ala-Nissila, T, Granato, E, Ying, S-C (2001) Dynamic scaling in c(2×2) reconstruction on W(0 0 1). In , Surface Science, pp.413-417, DOI: 10.1016/s0039-6028(01)00791-9.

Dube, M, Rost, M, Elder, KR, Alava, M, Majaniemi, S, Ala-Nissila, T (2000) Interface dynamics in imbibition. In , STATISTICAL PHYSICS, pp.543-546, ISBN: 1-56396-940-8.

Vattulainen, I, Merikoski, J, Ala-Nissila, T, Ying, SC (1997) Studies of surface diffusion under non-equilibrium conditions. In , SURFACE DIFFUSION, pp.625-634, ISBN: 0-306-45613-3.

Chapters

Laaksonen, K, Li, S-Y, Puisto, SR, Niklasson, GA, Ala-Nissilä, T, Nieminen, RM (2013) Optical Properties of Thermochromic VO2 Nanoparticles. In NATO Science for Peace and Security Series B: Physics and Biophysics, Springer Netherlands, pp.419-420, ISBN: 9789400753129. DOI: 10.1007/978-94-007-5313-6_41.

Datasets

Yanzhou, W, Zheyong, F, Ping, Q, Miguel, A, Ala-Nissila, T (2023) Supplementary information files for Quantum-corrected thickness-dependent thermal conductivity in amorphous silicon predicted by machine learning molecular dynamics simulations, DOI: 10.17028/rd.lboro.22110695.

Wang, H, Cheng, Y, Fan, Z, Guo, Y, Zhang, Z, Bescond, M, Nomura, M, Ala-Nissila, T, Volz, S, Xiong, S (2022) Supplementary information files for: Anomalous thermal conductivity enhancement in low dimensional resonant nanostructures due to imperfections, DOI: 10.17028/rd.lboro.16775938.

Conley, K, Moosakhani, S, Thakore, V, Ge, Y, Lehtonen, J, Karttunen, M, Hannula, S-P, Ala-Nissila, T (2021) Supplementary information files for: Silica-silicon composites for near-infrared reflection: A comprehensive computational and experimental study, DOI: 10.17028/rd.lboro.16769566.

Scacchi, A, Nikkhah, SJ, Sammalkorpi, M, Ala-Nissila, T (2021) Supplementary information files for: Self-assembly in soft matter with multiple length scales, DOI: 10.17028/rd.lboro.16771765.

Muhli, H, Chen, X, Bartók, AP, Hernández-León, P, Csányi, G, Ala-Nissila, T, Caro, MA (2021) Supplementary information files for: Machine learning force fields based on local parametrization of dispersion interactions: Application to the phase diagram of C₆₀, DOI: 10.17028/rd.lboro.16774699.

Vadimov, V, Tuorila, J, Orell, T, Stockburger, J, Ala-Nissila, T, Ankerhold, J, Möttönen, M (2021) Supplementary information files for: Validity of Born-Markov master equations for single- and two-qubit systems, DOI: 10.17028/rd.lboro.16774930.

Pandey, D, Sampaio, R, Ala-Nissila, T, Albareda, G, Oriols, X (2021) Supplementary information files for: Identifying weak values with intrinsic dynamical properties in modal theories, DOI: 10.17028/rd.lboro.16775962.

Thakore, V, Tang, J, Conley, K, Ala-Nissila, T, Karttunen, M (2018) Supplementary Information files for "Thermoplasmonic Response of Semiconductor Nanoparticles: A Comparison with Metals", DOI: 10.17028/rd.lboro.7358477.