Erik Jansson

Erik Jansson, Jonathan Krook, Klas Modin et al.

We address recovery of the three-dimensional backbone structure of single polypeptide proteins from single-particle cryo-electron microscopy (Cryo-SPA) data. Cryo-SPA produces noisy tomographic projections of electrostatic potentials of macromolecules. From these projections, we use methods from shape analysis to recover the three-dimensional backbone structure. Thus, we view the reconstruction problem as an indirect matching problem, where a point cloud representation of the protein backbone is deformed to match 2D tomography data. The deformations are obtained via the action of a matrix Lie group. By selecting a deformation energy, the optimality conditions are obtained, which lead to computational algorithms for optimal deformations. We showcase our approach on synthetic data, for which we recover the three-dimensional structure of the backbone.

Sagy Ephrati, Erik Jansson

The minimum-enstrophy theory of Bretherton and Haidvogel postulates that two-dimensional turbulent systems evolve to a state that minimises enstrophy at a fixed energy level. We extend this to the rotating spherical quasi-geostrophic setting, accounting for bottom topography and the fully nonlinear Coriolis effect, resulting in latitude-dependent effects not present in planar approximations. We prove existence and nonlinear stability of minimum-enstrophy solutions and describe analytically asymptotic regimes for certain rates of rotation, topography scales, and energy values. We compute the minimum-enstrophy solutions by a structure-preserving method for the quasi-geostrophic equations on the sphere. We apply the method to a range of parameter values, including those describing Jupiter's atmosphere. The results reveal a distinct latitude dependence of the flow, with a tendency for topographical trapping near the poles and zonal flow near the equator, depending on the chosen parameters. The predicted nonlinear stability is confirmed numerically by integrating perturbed solutions using a structure-preserving time discretisation.