arXiv subjects

Elizaveta Levina

Publications and source records attributed to Elizaveta Levina.

At least 37 records · Page 2Linked to original sources

arXiv2021

Recovering shared structure from multiple networks with unknown edge distributions

In increasingly many settings, data sets consist of multiple samples from a population of networks, with vertices aligned across these networks. For example, brain connectivity networks in neuroscience consist of measures of interaction between brain regions that have been aligned to a common template. We consider the setting where the observed networks have a shared expectation, but may differ in the noise structure on their edges. Our approach exploits the shared mean structure to denoise edge-level measurements of the observed networks and estimate the underlying population-level parameters. We also explore the extent to which edge-level errors influence estimation and downstream inference. We establish a finite-sample concentration inequality for the low-rank eigenvalue truncation of a random weighted adjacency matrix that may be of independent interest. The proposed approach is illustrated on synthetic networks and on data from an fMRI study of schizophrenia.

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arXiv2021

Community models for networks observed through edge nominations

Communities are a common and widely studied structure in networks, typically under the assumption that the network is fully and correctly observed. In practice, network data are often collected by querying nodes about their connections. In some settings, all edges of a sampled node will be recorded, and in others, a node may be asked to name its connections. These sampling mechanisms introduce noise and bias which can obscure the community structure and invalidate assumptions underlying standard community detection methods. We propose a general model for a class of network sampling mechanisms based on recording edges via querying nodes, designed to improve community detection for network data collected in this fashion. We model edge sampling probabilities as a function of both individual preferences and community parameters, and show community detection can be performed by spectral clustering under this general class of models. We also propose, as a special case of the general framework, a parametric model for directed networks we call the nomination stochastic block model, which allows for meaningful parameter interpretations and can be fitted by the method of moments. Both spectral clustering and the method of moments in this case are computationally efficient and come with theoretical guarantees of consistency. We evaluate the proposed model in simulation studies on both unweighted and weighted networks and apply it to a faculty hiring dataset, discovering a meaningful hierarchy of communities among US business schools.

stat.ME↗

arXiv2021

Overlapping community detection in networks via sparse spectral decomposition

We consider the problem of estimating overlapping community memberships in a network, where each node can belong to multiple communities. More than a few communities per node are difficult to both estimate and interpret, so we focus on sparse node membership vectors. Our algorithm is based on sparse principal subspace estimation with iterative thresholding. The method is computationally efficient, with a computational cost equivalent to estimating the leading eigenvectors of the adjacency matrix, and does not require an additional clustering step, unlike spectral clustering methods. We show that a fixed point of the algorithm corresponds to correct node memberships under a version of the stochastic block model. The methods are evaluated empirically on simulated and real-world networks, showing good statistical performance and computational efficiency.

cs.SI↗

arXiv2020

Hierarchical community detection by recursive partitioning

The problem of community detection in networks is usually formulated as finding a single partition of the network into some "correct" number of communities. We argue that it is more interpretable and in some regimes more accurate to construct a hierarchical tree of communities instead. This can be done with a simple top-down recursive partitioning algorithm, starting with a single community and separating the nodes into two communities by spectral clustering repeatedly, until a stopping rule suggests there are no further communities. This class of algorithms is model-free, computationally efficient, and requires no tuning other than selecting a stopping rule. We show that there are regimes where this approach outperforms K-way spectral clustering, and propose a natural framework for analyzing the algorithm's theoretical performance, the binary tree stochastic block model. Under this model, we prove that the algorithm correctly recovers the entire community tree under relatively mild assumptions. We apply the algorithm to a gene network based on gene co-occurrence in 1580 research papers on anemia, and identify six clusters of genes in a meaningful hierarchy. We also illustrate the algorithm on a dataset of statistics papers.

stat.ME↗

arXiv2020

Network cross-validation by edge sampling

While many statistical models and methods are now available for network analysis, resampling network data remains a challenging problem. Cross-validation is a useful general tool for model selection and parameter tuning, but is not directly applicable to networks since splitting network nodes into groups requires deleting edges and destroys some of the network structure. Here we propose a new network resampling strategy based on splitting node pairs rather than nodes applicable to cross-validation for a wide range of network model selection tasks. We provide a theoretical justification for our method in a general setting and examples of how our method can be used in specific network model selection and parameter tuning tasks. Numerical results on simulated networks and on a citation network of statisticians show that this cross-validation approach works well for model selection.

stat.ME↗

arXiv2020

High-dimensional Gaussian graphical model for network-linked data

Graphical models are commonly used to represent conditional dependence relationships between variables. There are multiple methods available for exploring them from high-dimensional data, but almost all of them rely on the assumption that the observations are independent and identically distributed. At the same time, observations connected by a network are becoming increasingly common, and tend to violate these assumptions. Here we develop a Gaussian graphical model for observations connected by a network with potentially different mean vectors, varying smoothly over the network. We propose an efficient estimation algorithm and demonstrate its effectiveness on both simulated and real data, obtaining meaningful and interpretable results on a statistics coauthorship network. We also prove that our method estimates both the inverse covariance matrix and the corresponding graph structure correctly under the assumption of network â€œcohesionâ€, which refers to the empirically observed phenomenon of network neighbors sharing similar traits.

stat.ML↗

arXiv2020

Simultaneous prediction and community detection for networks with application to neuroimaging

Community structure in networks is observed in many different domains, and unsupervised community detection has received a lot of attention in the literature. Increasingly the focus of network analysis is shifting towards using network information in some other prediction or inference task rather than just analyzing the network itself. In particular, in neuroimaging applications brain networks are available for multiple subjects and the goal is often to predict a phenotype of interest. Community structure is well known to be a feature of brain networks, typically corresponding to different regions of the brain responsible for different functions. There are standard parcellations of the brain into such regions, usually obtained by applying clustering methods to brain connectomes of healthy subjects. However, when the goal is predicting a phenotype or distinguishing between different conditions, these static communities from an unrelated set of healthy subjects may not be the most useful for prediction. Here we present a method for supervised community detection, aiming to find a partition of the network into communities that is most useful for predicting a particular response. We use a block-structured regularization penalty combined with a prediction loss function, and compute the solution with a combination of a spectral method and an ADMM optimization algorithm. We show that the spectral clustering method recovers the correct communities under a weighted stochastic block model. The method performs well on both simulated and real brain networks, providing support for the idea of task-dependent brain regions.

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arXiv2019

Estimating the number of communities in networks by spectral methods

Community detection is a fundamental problem in network analysis with many methods available to estimate communities. Most of these methods assume that the number of communities is known, which is often not the case in practice. We study a simple and very fast method for estimating the number of communities based on the spectral properties of certain graph operators, such as the non-backtracking matrix and the Bethe Hessian matrix. We show that the method performs well under several models and a wide range of parameters, and is guaranteed to be consistent under several asymptotic regimes. We compare this method to several existing methods for estimating the number of communities and show that it is both more accurate and more computationally efficient.

stat.ML↗

arXiv2019

Network classification with applications to brain connectomics

While statistical analysis of a single network has received a lot of attention in recent years, with a focus on social networks, analysis of a sample of networks presents its own challenges which require a different set of analytic tools. Here we study the problem of classification of networks with labeled nodes, motivated by applications in neuroimaging. Brain networks are constructed from imaging data to represent functional connectivity between regions of the brain, and previous work has shown the potential of such networks to distinguish between various brain disorders, giving rise to a network classification problem. Existing approaches tend to either treat all edge weights as a long vector, ignoring the network structure, or focus on graph topology as represented by summary measures while ignoring the edge weights. Our goal is to design a classification method that uses both the individual edge information and the network structure of the data in a computationally efficient way, and that can produce a parsimonious and interpretable representation of differences in brain connectivity patterns between classes. We propose a graph classification method that uses edge weights as predictors but incorporates the network nature of the data via penalties that promote sparsity in the number of nodes, in addition to the usual sparsity penalties that encourage selection of edges. We implement the method via efficient convex optimization and provide a detailed analysis of data from two fMRI studies of schizophrenia.

stat.ME↗

arXiv2018

Estimating a network from multiple noisy realizations

Complex interactions between entities are often represented as edges in a network. In practice, the network is often constructed from noisy measurements and inevitably contains some errors. In this paper we consider the problem of estimating a network from multiple noisy observations where edges of the original network are recorded with both false positives and false negatives. This problem is motivated by neuroimaging applications where brain networks of a group of patients with a particular brain condition could be viewed as noisy versions of an unobserved true network corresponding to the disease. The key to optimally leveraging these multiple observations is to take advantage of network structure, and here we focus on the case where the true network contains communities. Communities are common in real networks in general and in particular are believed to be presented in brain networks. Under a community structure assumption on the truth, we derive an efficient method to estimate the noise levels and the original network, with theoretical guarantees on the convergence of our estimates. We show on synthetic networks that the performance of our method is close to an oracle method using the true parameter values, and apply our method to fMRI brain data, demonstrating that it constructs stable and plausible estimates of the population network.

math.ST↗

arXiv2018

Prediction models for network-linked data

Prediction algorithms typically assume the training data are independent samples, but in many modern applications samples come from individuals connected by a network. For example, in adolescent health studies of risk-taking behaviors, information on the subjects' social network is often available and plays an important role through network cohesion, the empirically observed phenomenon of friends behaving similarly. Taking cohesion into account in prediction models should allow us to improve their performance. Here we propose a network-based penalty on individual node effects to encourage similarity between predictions for linked nodes, and show that incorporating it into prediction leads to improvement over traditional models both theoretically and empirically when network cohesion is present. The penalty can be used with many loss-based prediction methods, such as regression, generalized linear models, and Cox's proportional hazard model. Applications to predicting levels of recreational activity and marijuana usage among teenagers from the AddHealth study based on both demographic covariates and friendship networks are discussed in detail and show that our approach to taking friendships into account can significantly improve predictions of behavior while providing interpretable estimates of covariate effects.

stat.ME↗

arXiv2018

Link prediction for egocentrically sampled networks

Link prediction in networks is typically accomplished by estimating or ranking the probabilities of edges for all pairs of nodes. In practice, especially for social networks, the data are often collected by egocentric sampling, which means selecting a subset of nodes and recording all of their edges. This sampling mechanism requires different prediction tools than the typical assumption of links missing at random. We propose a new computationally efficient link prediction algorithm for egocentrically sampled networks, which estimates the underlying probability matrix by estimating its row space. For networks created by sampling rows, our method outperforms many popular link prediction and graphon estimation techniques.

stat.CO↗

arXiv2018

Concentration of random graphs and application to community detection

Random matrix theory has played an important role in recent work on statistical network analysis. In this paper, we review recent results on regimes of concentration of random graphs around their expectation, showing that dense graphs concentrate and sparse graphs concentrate after regularization. We also review relevant network models that may be of interest to probabilists considering directions for new random matrix theory developments, and random matrix theory tools that may be of interest to statisticians looking to prove properties of network algorithms. Applications of concentration results to the problem of community detection in networks are discussed in detail.

math.ST↗

arXiv2017

Estimating network edge probabilities by neighborhood smoothing

The estimation of probabilities of network edges from the observed adjacency matrix has important applications to predicting missing links and network denoising. It has usually been addressed by estimating the graphon, a function that determines the matrix of edge probabilities, but this is ill-defined without strong assumptions on the network structure. Here we propose a novel computationally efficient method, based on neighborhood smoothing to estimate the expectation of the adjacency matrix directly, without making the structural assumptions that graphon estimation requires. The neighborhood smoothing method requires little tuning, has a competitive mean-squared error rate, and outperforms many benchmark methods on link prediction in simulated and real networks.

stat.ML↗

arXiv2017

Generalized linear models with low rank effects for network data

Networks are a useful representation for data on connections between units of interests, but the observed connections are often noisy and/or include missing values. One common approach to network analysis is to treat the network as a realization from a random graph model, and estimate the underlying edge probability matrix, which is sometimes referred to as network denoising. Here we propose a generalized linear model with low rank effects to model network edges. This model can be applied to various types of networks, including directed and undirected, binary and weighted, and it can naturally utilize additional information such as node and/or edge covariates. We develop an efficient projected gradient ascent algorithm to fit the model, establish asymptotic consistency, and demonstrate empirical performance of the method on both simulated and real networks.

stat.ME↗

arXiv2016

High-dimensional Mixed Graphical Models

While graphical models for continuous data (Gaussian graphical models) and discrete data (Ising models) have been extensively studied, there is little work on graphical models linking both continuous and discrete variables (mixed data), which are common in many scientific applications. We propose a novel graphical model for mixed data, which is simple enough to be suitable for high-dimensional data, yet flexible enough to represent all possible graph structures. We develop a computationally efficient regression-based algorithm for fitting the model by focusing on the conditional log-likelihood of each variable given the rest. The parameters have a natural group structure, and sparsity in the fitted graph is attained by incorporating a group lasso penalty, approximated by a weighted $\ell_1$ penalty for computational efficiency. We demonstrate the effectiveness of our method through an extensive simulation study and apply it to a music annotation data set (CAL500), obtaining a sparse and interpretable graphical model relating the continuous features of the audio signal to categorical variables such as genre, emotions, and usage associated with particular songs. While we focus on binary discrete variables, we also show that the proposed methodology can be easily extended to general discrete variables.

stat.ML↗

arXiv2016

Concentration and regularization of random graphs

This paper studies how close random graphs are typically to their expectations. We interpret this question through the concentration of the adjacency and Laplacian matrices in the spectral norm. We study inhomogeneous Erdös-Rényi random graphs on $n$ vertices, where edges form independently and possibly with different probabilities $p_{ij}$. Sparse random graphs whose expected degrees are $o(\log n)$ fail to concentrate; the obstruction is caused by vertices with abnormally high and low degrees. We show that concentration can be restored if we regularize the degrees of such vertices, and one can do this in various ways. As an example, let us reweight or remove enough edges to make all degrees bounded above by $O(d)$ where $d=\max np_{ij}$. Then we show that the resulting adjacency matrix $A'$ concentrates with the optimal rate: $\|A' - \mathbb{E} A\| = O(\sqrt{d})$. Similarly, if we make all degrees bounded below by $d$ by adding weight $d/n$ to all edges, then the resulting Laplacian concentrates with the optimal rate: $\|L(A') - L(\mathbb{E} A')\| = O(1/\sqrt{d})$. Our approach is based on Grothendieck-Pietsch factorization, using which we construct a new decomposition of random graphs. We illustrate the concentration results with an application to the community detection problem in the analysis of networks.

math.PR↗

arXiv2016

On semidefinite relaxations for the block model

The stochastic block model (SBM) is a popular tool for community detection in networks, but fitting it by maximum likelihood (MLE) involves a computationally infeasible optimization problem. We propose a new semidefinite programming (SDP) solution to the problem of fitting the SBM, derived as a relaxation of the MLE. We put ours and previously proposed SDPs in a unified framework, as relaxations of the MLE over various sub-classes of the SBM, revealing a connection to sparse PCA. Our main relaxation, which we call SDP-1, is tighter than other recently proposed SDP relaxations, and thus previously established theoretical guarantees carry over. However, we show that SDP-1 exactly recovers true communities over a wider class of SBMs than those covered by current results. In particular, the assumption of strong assortativity of the SBM, implicit in consistency conditions for previously proposed SDPs, can be relaxed to weak assortativity for our approach, thus significantly broadening the class of SBMs covered by the consistency results. We also show that strong assortativity is indeed a necessary condition for exact recovery for previously proposed SDP approaches and not an artifact of the proofs. Our analysis of SDPs is based on primal-dual witness constructions, which provides some insight into the nature of the solutions of various SDPs. We show how to combine features from SDP-1 and already available SDPs to achieve the most flexibility in terms of both assortativity and block-size constraints, as our relaxation has the tendency to produce communities of similar sizes. This tendency makes it the ideal tool for fitting network histograms, a method gaining popularity in the graphon estimation literature, as we illustrate on an example of a social networks of dolphins. We also provide empirical evidence that SDPs outperform spectral methods for fitting SBMs with a large number of blocks.

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