MaBS

Ewing G. and Hermisson J. (2010).
MSMS: A coalescent simulation program including recombination, demographic structure, and selection at a single locus.
Bioinformatics, in press.
Mueller J.C., Hermisson J., Olano-Marin J., Hansson B. and Kempenaers B. (2010).
Linking genetic mechanisms of heterozygosity-fitness correlations to footprints of selection at single loci.
Evolutionary Ecology, online first, DOI: 10.1007/s10682-010-9377-2.
Kopp M. and Hermisson J. (2009).
The genetic basis of phenotypic adaptation II: The distribution of adaptive substitutions in the moving optimum model.
Genetics 183: 1453-1476. (pdf)
Goering L.M., Hunt P.K., Heighington C., Busick C., Pennings P., Hermisson J., Kumar S. and Gibson G. (2009)
Association of orthodenticle with natural variation for early embryonic patterning in Drosophila melanogaster.
J. Exp. Zool. (Mol. Dev. Evol.) 312B: 841-854. (pdf)
Hermisson J. (2009)
Who believes in whole-genome scans for selection.
Heredity 103: 283-284. (pdf)
Kopp M. and Hermisson J. (2009).
The genetic basis of phenotypic adaptation I: Fixation of beneficial mutations in the moving optimum model.
Genetics 182: 233-249. (pdf)
Alvarez-Castro J.-M., Kopp M. and Hermisson J. (2009).
Effects of epistasis and the evolution of genetic architecture: exact results for a 2-locus model.
Theoretical Population Biology 75: 109-122. (pdf)
Hermisson J. and McGregor, A.P. (2008).
Pleiotropic scaling and QTL data.
Nature 456: E3-E4.
Hermisson J. and Pfaffelhuber P. (2008).
The pattern of genetic hitchhiking under recurrent mutation.
Electronic Journal of Probability 13: 2069-2106. (pdf)
Kopp M. and Hermisson J. (2008).
Competitive speciation and costs of choosiness.
Journal of Evolutionary Biology 21: 1005-1023. (pdf)
Pennings, P.S., Kopp M., Meszena G., Dieckmann U. and Hermisson J. (2008).
An analytically tractable model for competitive speciation.
American Naturalist 171: E44-E71. (pdf)
Kopp M. and Hermisson J. (2007).
Adaptation of a quantitative trait to a moving optimum.
Genetics 176: 715-719.
(pdf)
Pennings P.S. and Hermisson J. (2006).
Soft sweeps II - Molecular population genetics of adaptation from recurrent mutation or migration
Molecular Biology and Evolution 23: 1076-1084. (pdf)
Kopp M. and Hermisson J. (2006).
Evolution of genetic architecture under frequency-dependent disruptive selection
Evolution 60: 1537-1550. (pdf, appendices)
Hansen T.F., Alvarez-Castro J.-M., Carter A.J.R., Hermisson J. and Wagner G.P. (2006).
Evolution of genetic architecture under directional selection
Evolution 60: 1523-1536. (pdf)
Pennings P.S. and Hermisson J. (2006).
Soft sweeps III - The signature of positive selection from recurrent mutation
PLoS Genetics 2: e186 (pdf)
Hermisson J. and Pennings P.S. (2005).
Soft sweeps - molecular population genetics of adaptation from standing genetic variation.
Genetics 169: 2335-2352. (pdf)
Hermisson J. and Wagner G.P. (2005).
Evolution of phenotypic robustness.
Book chapter appeared in: Robust Design: A Repertoire from Biology, Ecology, and Engineering,
E. Jen (ed.), Oxford University Press, Oxford, pp 47-70. (pdf)
Stoletzki J., Welch J., Hermisson J. and Eyre-Walker A. (2005).
A dissection of volatility in yeast.
Molecular Biology and Evolution 22, 2022-2026. (pdf)
Carter A.J.R., Hermisson J. and Hansen T.F. (2005).
The role of epistatic gene interactions in the response to selection and the evolution of evolvability.
Theoretical Population Biology 68, 179-196. (pdf)
Shpak M., Stadler P.F., Wagner G.P. and Hermisson J. (2004).
Aggregation of variables and system decomposition: application to fitness landscape analysis.
Theory in Biosciences 123(1):33-68.
Hermisson J. and Wagner G.P. (2004).
The Population Genetic Theory of Hidden Variation and Genetic Robustness.
Genetics 168:2271-2284. (pdf)
Featured in Nature Reviews Genetics Vol. 6 Feb 2005 (.pdf)
Bagheri-Chaichian H., Hermisson J., Vaisnys J.R. and Wagner G. P. (2003).
Effects of epistasis on phenotypic robustness in metabolic pathways.
Mathematical Biosciences 184:27-51.
Hermisson J., Hansen T.F. and Wagner G.P. (2003).
Epistasis in polygenic traits and the evolution of genetic architecture under stabilizing selection.
American Naturalist 161:708-734. (pdf)
de Visser J.A.G.M., Hermisson J. et. al. (2003).
Perspective: evolution and detection of genetic robustness.
Evolution 57:1959-1972. (pdf)
Hermisson J., Redner O., Wagner H. and Baake E. (2002).
Mutation-selection balance: ancestry, load, and maximum principle.
Theoretical Population Biology 62: 9-46. (pdf)
Hermisson J., Wagner H. and Baake M. (2001).
Four-state quantum chain as a model for sequence evolution.
Journal of Statistical Physics 102: 315-343. (pdf)

Quantum Physics

Hermisson J. (2000). Aperiodic and correlated disorder in XY-chains: exact results, J. Phys. A 33: 57-79.
Hermisson J. (2000). Renormalization of two-dimensional Ising systems with irrelevant, marginal, and relevant (dis)order. Mat. Sci. Eng. A 294-296: 642-645.
Hermisson J. and Grimm U. (1998). Surface properties of aperiodic Ising quantum chains. Phys. Rev. B57: 673-676.
Richard C., Höffe M., Hermisson J. and Baake M. (1998). Random tilings: concepts and examples. J. Phys. A 31: 6385-6408.
Hermisson J. (1998). The aperiodic Ising quantum chain. pp. 99-102 in: Proc. 6th Intern. Conf. on Quasicrystals Takeuchi S. and Fujiwara T. (eds.), World Scientific, Singapore 1998.
Baake M., Hermisson J., Lück R. and Scheffer M. (1998). Colourings of quasicrystals. pp. 120-123 in: Proc. 6th Intern. Conf. on Quasicrystals Takeuchi S. and Fujiwara T. (eds.), World Scientific, Singapore 1998.
Baake M., Hermisson J., Höffe M. and Richard C. (1998). Random tilings and dimer models. pp. 128-131 in: Proc. 6th Intern. Conf. on Quasicrystals Takeuchi S. and Fujiwara T. (eds.), World Scientific, Singapore 1998.
Baake M., Hermisson J. and Pleasants P. (1997). The torus parametrization of quasiperiodic LI-classes. J. Phys. A 30: 3029-3056.
Hermisson J. (1997). The symmetry structure of the Ammann-Beenker tiling class. pp. 977-981 in: Proc. XXI Int. Colloq. on Group Theor. Meth. in Physics Doebner H.-D., Scherer W., and Schulte C. (eds.), World Scientific, Singapore 1997.
Hermisson J., Richard C. and Baake M. (1997). A guide to the symmetry structure of quasiperiodic tiling classes. J. Phys. I (France) 7: 1003-1018.
Hermisson J., Grimm U., and Baake M. (1997). Aperiodic Ising quantum chains. J. Phys. A 30: 7315-7335.
Kopietz P., Hermisson J., and Schönhammer K. (1995). Bosonization of interacting fermions in arbitrary dimension beyond the Gaussian approximation. Phys. Rev. B 52: 10877-10898.