Datasets in which measurements of two (or more) types are obtained from a common set of samples arise in many scientific applications. A common problem in the exploratory analysis of such data is to identify groups of features of different data types that are strongly associated. A bimodule is a pair (A,B) of feature sets from two data types such that the aggregate cross-correlation between the features in A and those in B is large. A bimodule (A,B) is stable if A coincides with the set of features that have significant aggregate correlation with the features in B, and vice-versa. This paper proposes an iterative-testing based bimodule search procedure (BSP) to identify stable bimodules. Compared to existing methods for detecting cross-correlated features, BSP was the best at recovering true bimodules with sufficient signal, while limiting the false discoveries. In addition, we applied BSP to the problem of expression quantitative trait loci (eQTL) analysis using data from the GTEx consortium. BSP identified several thousand SNP-gene bimodules. While many of the individual SNP-gene pairs appearing in the discovered bimodules were identified by standard eQTL methods, the discovered bimodules revealed genomic subnetworks that appeared to be biologically meaningful and worthy of further scientific investigation.

We propose a new technique for performing state-space exploration of closed-loop control systems with neural network feedback controllers. Our approach involves approximating the sensitivity of the trajectories of the closed-loop dynamics. Using such an approximator and the system simulator, we present a guided state-space exploration method that can generate trajectories visiting the neighborhood of a target state at a specified time. We present a theoretical framework which establishes that our method will produce a sequence of trajectories that will reach a suitable neighborhood of the target state. We provide a thorough evaluation of our approach on various systems with neural network feedback controllers of different configurations. We outperform earlier state-space exploration techniques and achieve significant improvement in both the quality (explainability) and performance (convergence rate). Finally, we adopt our algorithm for the falsification of a class of temporal logic specification, assess its performance, and show its potential in supplementing existing falsification algorithms.

We introduce a new setting where a population of agents, each modelled by a finite-state system, are controlled uniformly: the controller applies the same action to every agent. The framework is largely inspired by the control of a biological system, namely a population of yeasts, where the controller may only change the environment common to all cells. We study a synchronisation problem for such populations: no matter how individual agents react to the actions of the controller, the controller aims at driving all agents synchronously to a target state. The agents are naturally represented by a non-deterministic finite state automaton (NFA), the same for every agent, and the whole system is encoded as a 2-player game. The first player (Controller) chooses actions, and the second player (Agents) resolves non-determinism for each agent. The game with m agents is called the m -population game. This gives rise to a parameterized control problem (where control refers to 2 player games), namely the population control problem: can Controller control the m-population game for all m in N whatever Agents does? Comment: This is a journal version of the extended abstract arXiv:1707.02058 which appeared in Concur 2017, together with proofs