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We consider a platform's problem of collecting data from privacy sensitive users to estimate an underlying parameter of interest. We formulate this question as a Bayesian-optimal mechanism design problem, in which an individual can share her (verifiable) data in exchange for a monetary reward or services, but at the same time has a (private) heterogeneous privacy cost which we quantify using differential privacy. We consider two popular differential privacy settings for providing privacy guarantees for the users: central and local. In both settings, we establish minimax lower bounds for the estimation error and derive (near) optimal estimators for given heterogeneous privacy loss levels for users. Building on this characterization, we pose the mechanism design problem as the optimal selection of an estimator and payments that will elicit truthful reporting of users' privacy sensitivities. Under a regularity condition on the distribution of privacy sensitivities we develop efficient algorithmic mechanisms to solve this problem in both privacy settings. Our mechanism in the central setting can be implemented in time $\mathcal{O}(n \log n)$ where $n$ is the number of users and our mechanism in the local setting admits a Polynomial Time Approximation Scheme (PTAS).

In this work, we determine the full expression for the global truncation error of hyperbolic partial differential equations (PDEs). In particular, we use theoretical analysis and symbolic algebra to find exact expressions for the coefficients of the generic global truncation error. Our analysis is valid for any hyperbolic PDE, be it linear or non-linear, and employing finite difference, finite volume, or finite element discretization in space, and advanced in time with a predictor-corrector, multistep, or a deferred correction method, belonging to the Method of Lines. Furthermore, we discuss the practical implications of this analysis. If we employ a stable numerical scheme and the orders of accuracy of the global solution error and the global truncation error agree, we make the following asymptotic observations: (a) the order of convergence at constant ratio of $\Delta t$ to $\Delta x$ is governed by the minimum of the orders of the spatial and temporal discretizations, and (b) convergence cannot even be guaranteed under only spatial or temporal refinement. An implication of (a) is that it is impractical to invest in a time-stepping method of order higher than the spatial discretization. In addition to (b), we demonstrate that under certain circumstances, the error can even monotonically increase with refinement only in space or only in time, and explain why this phenomenon occurs. To verify our theoretical findings, we conduct convergence studies of linear and non-linear advection equations using finite difference and finite volume spatial discretizations, and predictor-corrector and multistep time-stepping methods. Finally, we study the effect of slope limiters and monotonicity-preserving strategies on the order of accuracy.

Power is an important aspect of experimental design, because it allows researchers to understand the chance of detecting causal effects if they exist. It is common to specify a desired level of power, and then compute the sample size necessary to obtain that level of power; thus, power calculations help determine how experiments are conducted in practice. Power and sample size calculations are readily available for completely randomized experiments; however, there can be many benefits to using other experimental designs. For example, in recent years it has been established that rerandomized designs, where subjects are randomized until a prespecified level of covariate balance is obtained, increase the precision of causal effect estimators. This work establishes the statistical power of rerandomized treatment-control experiments, thereby allowing for sample size calculators. Our theoretical results also clarify how power and sample size are affected by treatment effect heterogeneity, a quantity that is often ignored in power analyses. Via simulation, we confirm our theoretical results and find that rerandomization can lead to substantial sample size reductions; e.g., in many realistic scenarios, rerandomization can lead to a 25% or even 50% reduction in sample size for a fixed level of power, compared to complete randomization. Power and sample size calculators based on our results are in the R package rerandPower on CRAN.

Road casualties represent an alarming concern for modern societies, especially in poor and developing countries. In the last years, several authors developed sophisticated statistical approaches to help local authorities implement new policies and mitigate the problem. These models are typically developed taking into account a set of socio-economic or demographic variables, such as population density and traffic volumes. However, they usually ignore that the external factors may be suffering from measurement errors, which can severely bias the statistical inference. This paper presents a Bayesian hierarchical model to analyse car crashes occurrences at the network lattice level taking into account measurement error in the spatial covariates. The suggested methodology is exemplified considering all road collisions in the road network of Leeds (UK) from 2011 to 2019. Traffic volumes are approximated at the street segment level using an extensive set of road counts obtained from mobile devices, and the estimates are corrected using a measurement error model. Our results show that omitting measurement error considerably worsens the model's fit and attenuates the effects of imprecise covariates.

CRISPR genome engineering and single-cell RNA sequencing have transformed biological discovery. Single-cell CRISPR screens unite these two technologies, linking genetic perturbations in individual cells to changes in gene expression and illuminating regulatory networks underlying diseases. Despite their promise, single-cell CRISPR screens present substantial statistical challenges. We demonstrate through theoretical and real data analyses that a standard method for estimation and inference in single-cell CRISPR screens -- "thresholded regression" -- exhibits attenuation bias and a bias-variance tradeoff as a function of an intrinsic, challenging-to-select tuning parameter. To overcome these difficulties, we introduce GLM-EIV ("GLM-based errors-in-variables"), a new method for single-cell CRISPR screen analysis. GLM-EIV extends the classical errors-in-variables model to responses and noisy predictors that are exponential family-distributed and potentially impacted by the same set of confounding variables. We develop a computational infrastructure to deploy GLM-EIV across tens or hundreds of nodes on clouds (e.g., Microsoft Azure) and high-performance clusters. Leveraging this infrastructure, we apply GLM-EIV to analyze two recent, large-scale, single-cell CRISPR screen datasets, demonstrating improved performance in challenging problem settings.

Deep neural networks (DNNs) are notorious for making more mistakes for the classes that have substantially fewer samples than the others during training. Such class imbalance is ubiquitous in clinical applications and very crucial to handle because the classes with fewer samples most often correspond to critical cases (e.g., cancer) where misclassifications can have severe consequences. Not to miss such cases, binary classifiers need to be operated at high True Positive Rates (TPRs) by setting a higher threshold, but this comes at the cost of very high False Positive Rates (FPRs) for problems with class imbalance. Existing methods for learning under class imbalance most often do not take this into account. We argue that prediction accuracy should be improved by emphasizing reducing FPRs at high TPRs for problems where misclassification of the positive, i.e. critical, class samples are associated with higher cost. To this end, we pose the training of a DNN for binary classification as a constrained optimization problem and introduce a novel constraint that can be used with existing loss functions to enforce maximal area under the ROC curve (AUC) through prioritizing FPR reduction at high TPR. We solve the resulting constrained optimization problem using an Augmented Lagrangian method (ALM). Going beyond binary, we also propose two possible extensions of the proposed constraint for multi-class classification problems. We present experimental results for image-based binary and multi-class classification applications using an in-house medical imaging dataset, CIFAR10, and CIFAR100. Our results demonstrate that the proposed method improves the baselines in majority of the cases by attaining higher accuracy on critical classes while reducing the misclassification rate for the non-critical class samples.

Learning structural representations of node sets from graph-structured data is crucial for applications ranging from node-role discovery to link prediction and molecule classification. Graph Neural Networks (GNNs) have achieved great success in structural representation learning. However, most GNNs are limited by the 1-Weisfeiler-Lehman (WL) test and thus possible to generate identical representation for structures and graphs that are actually different. More powerful GNNs, proposed recently by mimicking higher-order-WL tests, only focus on entire-graph representations and cannot utilize sparsity of the graph structure to be computationally efficient. Here we propose a general class of structure-related features, termed Distance Encoding (DE), to assist GNNs in representing node sets with arbitrary sizes with strictly more expressive power than the 1-WL test. DE essentially captures the distance between the node set whose representation is to be learnt and each node in the graph, which includes important graph-related measures such as shortest-path-distance and generalized PageRank scores. We propose two general frameworks for GNNs to use DEs (1) as extra node attributes and (2) further as controllers of message aggregation in GNNs. Both frameworks may still utilize the sparse structure to keep scalability to process large graphs. In theory, we prove that these two frameworks can distinguish node sets embedded in almost all regular graphs where traditional GNNs always fail. We also rigorously analyze their limitations. Empirically, we evaluate these two frameworks on node structural roles prediction, link prediction and triangle prediction over six real networks. The results show that our models outperform GNNs without DEs by up-to 15% improvement in average accuracy and AUC. Our models also significantly outperform other SOTA baselines particularly designed for those tasks.

We introduce a new family of deep neural network models. Instead of specifying a discrete sequence of hidden layers, we parameterize the derivative of the hidden state using a neural network. The output of the network is computed using a black-box differential equation solver. These continuous-depth models have constant memory cost, adapt their evaluation strategy to each input, and can explicitly trade numerical precision for speed. We demonstrate these properties in continuous-depth residual networks and continuous-time latent variable models. We also construct continuous normalizing flows, a generative model that can train by maximum likelihood, without partitioning or ordering the data dimensions. For training, we show how to scalably backpropagate through any ODE solver, without access to its internal operations. This allows end-to-end training of ODEs within larger models.

Graph Neural Networks (GNNs) for representation learning of graphs broadly follow a neighborhood aggregation framework, where the representation vector of a node is computed by recursively aggregating and transforming feature vectors of its neighboring nodes. Many GNN variants have been proposed and have achieved state-of-the-art results on both node and graph classification tasks. However, despite GNNs revolutionizing graph representation learning, there is limited understanding of their representational properties and limitations. Here, we present a theoretical framework for analyzing the expressive power of GNNs in capturing different graph structures. Our results characterize the discriminative power of popular GNN variants, such as Graph Convolutional Networks and GraphSAGE, and show that they cannot learn to distinguish certain simple graph structures. We then develop a simple architecture that is provably the most expressive among the class of GNNs and is as powerful as the Weisfeiler-Lehman graph isomorphism test. We empirically validate our theoretical findings on a number of graph classification benchmarks, and demonstrate that our model achieves state-of-the-art performance.

The availability of large microarray data has led to a growing interest in biclustering methods in the past decade. Several algorithms have been proposed to identify subsets of genes and conditions according to different similarity measures and under varying constraints. In this paper we focus on the exclusive row biclustering problem for gene expression data sets, in which each row can only be a member of a single bicluster while columns can participate in multiple ones. This type of biclustering may be adequate, for example, for clustering groups of cancer patients where each patient (row) is expected to be carrying only a single type of cancer, while each cancer type is associated with multiple (and possibly overlapping) genes (columns). We present a novel method to identify these exclusive row biclusters through a combination of existing biclustering algorithms and combinatorial auction techniques. We devise an approach for tuning the threshold for our algorithm based on comparison to a null model in the spirit of the Gap statistic approach. We demonstrate our approach on both synthetic and real-world gene expression data and show its power in identifying large span non-overlapping rows sub matrices, while considering their unique nature. The Gap statistic approach succeeds in identifying appropriate thresholds in all our examples.