Network alignment is the problem of finding a common subgraph between two graphs, and more generally <i>k </i>graphs. The results of network alignment are often used for information transfer, which makes it a powerful tool for deducing information or insight about networks. Network alignment is tightly related to the subgraph isomorphism problem which is known to be NP-hard, this makes the network alignment problem supremely hard in practice. Some algorithms have been devised to approach it via solving a form of a relaxed version of the NP-hard problem or by defining certain heuristic measures. These algorithms normally work well for problems when there is some form of prior known similarity between the nodes of the graphs to be aligned. The absence of such information makes the problem more challenging. In this scenario, these algorithms would often require much more time to finish executing, and even fail sometimes. The version of network alignment that this thesis tackles is the one when such prior similarity measures are absent. In this thesis, we address three versions of network alignment: (i) multimoal network alignment, (ii) standard pairwise network alignment, and (iii) multiple network alignment. A key common component of the algorithms presented in this thesis is exploiting a low rank structure in the network alignment problem and thus producing algorithms that run much faster than classic network alignment algorithms.

<div><div>In this thesis, we focus on two challenges arising in kinetic equations, high dimensions and uncertainties. To reduce the dimensions, we proposed efficient methods for linear Boltzmann and full Boltzmann equations based on dynamic low-rank frameworks. For linear Boltzmann equation, we proposed a method that is based on macro-micro decomposition of the equation; the low-rank approximation is only used for the micro part of the solution. The time and spatial discretizations are done properly so that the overall scheme is second-order accurate (in both the fully kinetic and the limit regime) and asymptotic-preserving (AP). That is, in the diffusive regime, the scheme becomes a macroscopic solver for the limiting diffusion equation that automatically captures the low-rank structure of the solution. Moreover, the method can be implemented in a fully explicit way and is thus significantly more efficient compared to the previous state of the art. We demonstrate the accuracy and efficiency of the proposed low-rank method by a number of four-dimensional (two dimensions in physical space and two dimensions in velocity space) simulations. We further study the adaptivity of low-rank methods in full Boltzmann equation. We proposed a highly efficient adaptive low- rank method in Boltzmann equation for computations of steady state solutions. The main novelties of this approach are: On one hand, to the best of our knowledge, the dynamic low- rank integrator hasn’t been applied to full Boltzmann equation till date. The full collision operator is local in spatial variable while the convection part is local in velocity variable. This separated nature is well-suited for low-rank methods. Compared with full grid method (finite difference, finite volume,...), the dynamic low-rank method can avoid the full computations of collision operators in each spatial grid/elements. Resultingly, it can achieve much better efficiency especially for some low rank flows (e.g. normal shock wave). On the other hand, our adaptive low-rank method uses a novel dynamic thresholding strategy to adaptively control the computational rank to achieve better efficiency especially for steady state solutions. We demonstrate the accuracy and efficiency of the proposed adaptive low rank method by a number of 1D/2D Maxwell molecule benchmark tests. On the other hand, for kinetic equations with uncertainties, we focus on non-intrusive sampling methods where we are able to inherit good properties (AP, positivity preserving) from existing deterministic solvers. We propose a control variate multilevel Monte Carlo method for the kinetic BGK model of the Boltzmann equation subject to random inputs. The method combines a multilevel Monte Carlo technique with the computation of the optimal control variate multipliers derived from local or global variance minimization prob- lems. Consistency and convergence analysis for the method equipped with a second-order positivity-preserving and asymptotic-preserving scheme in space and time is also performed. Various numerical examples confirm that the optimized multilevel Monte Carlo method outperforms the classical multilevel Monte Carlo method especially for problems with dis- continuities<br></div></div>