Matrix factorization methods are linear models, with limited capability to model complex relations. In our work, we use tropical semiring to introduce non-linearity into matrix factorization models. We propose a method called Sparse Tropical Matrix Factorization (STMF) for the estimation of missing (unknown) values. We evaluate the efficiency of the STMF method on both synthetic data and biological data in the form of gene expression measurements downloaded from The Cancer Genome Atlas (TCGA) database. Tests on unique synthetic data showed that STMF approximation achieves a higher correlation than non-negative matrix factorization (NMF), which is unable to recover patterns effectively. On real data, STMF outperforms NMF on six out of nine gene expression datasets. While NMF assumes normal distribution and tends toward the mean value, STMF can better fit to extreme values and distributions. STMF is the first work that uses tropical semiring on sparse data. We show that in certain cases semirings are useful because they consider the structure, which is different and simpler to understand than it is with standard linear algebra.
University of Ljubljana（卢布尔雅那大学）；Faculty of Computer and Information Science（计算机与信息科学学院）
Matrix factorization, one of the most popular methods in machine learning, has recently benefited from introducing non-linearity in prediction tasks using tropical semiring. The non-linearity enables a better fit to extreme values and distributions, thus discovering high-variance patterns that differ from those found by standard linear algebra. However, the optimization process of various tropical matrix factorization methods is slow. In our work, we propose a new method FastSTMF based on Sparse Tropical Matrix Factorization (STMF), which introduces a novel strategy for updating factor matrice…
Max Planck Institute for Informatics（马克斯·普朗克信息学研究所）；University of Bath（巴斯大学）
Nonnegative matrix factorization (NMF) is one of the most frequently-used matrix factorization models in data analysis. A significant reason to the popularity of NMF is its interpretability and the `parts of whole' interpretation of its components. Recently, max-times, or subtropical, matrix factorization (SMF) has been introduced as an alternative model with equally interpretable `winner takes it all' interpretation. In this paper we propose a new mixed linear--tropical model, and a new algorithm, called Latitude, that combines NMF and SMF, being able to smoothly alternate between the two. In…
Toyota Technological Institute at Chicago（芝加哥丰田理工学院）；Microsoft Research（微软研究院）
We investigate the problem of factorizing a matrix into several sparse matrices and propose an algorithm for this under randomness and sparsity assumptions. This problem can be viewed as a simplification of the deep learning problem where finding a factorization corresponds to finding edges in different layers and values of hidden units. We prove that under certain assumptions for a sparse linear deep network with $n$ nodes in each layer, our algorithm is able to recover the structure of the network and values of top layer hidden units for depths up to $\tilde O(n^{1/6})$. We further discuss t…
This work explores non-negative low-rank matrix factorization based on regularized Poisson models (PF or "Poisson factorization" for short) for recommender systems with implicit-feedback data. The properties of Poisson likelihood allow a shortcut for very fast computations over zero-valued inputs, and oftentimes results in very sparse factors for both users and items. Compared to HPF (a popular Bayesian formulation of the problem with hierarchical priors), the frequentist optimization-based approach presented here tends to produce better top-N recommendations with significantly shorter fitting…
INRIA（法国国家信息与自动化研究所）；Laboratoire d’Informatique de l’Ecole Normale Supérieure（巴黎高等师范学院信息学实验室）；Ecole Normale Supérieure（巴黎高等师范学院）；University of Minnesota（明尼苏达大学）
Sparse coding--that is, modelling data vectors as sparse linear combinations of basis elements--is widely used in machine learning, neuroscience, signal processing, and statistics. This paper focuses on the large-scale matrix factorization problem that consists of learning the basis set, adapting it to specific data. Variations of this problem include dictionary learning in signal processing, non-negative matrix factorization and sparse principal component analysis. In this paper, we propose to address these tasks with a new online optimization algorithm, based on stochastic approximations, wh…
The Chinese University of Hong Kong (Shenzhen)（香港中文大学（深圳））；Shenzhen Research Institute of Big Data（深圳大数据研究院）；Cornell University（康奈尔大学）
Low dimensional nonlinear structure abounds in datasets across computer vision and machine learning. Kernelized matrix factorization techniques have recently been proposed to learn these nonlinear structures for denoising, classification, dictionary learning, and missing data imputation, by observing that the image of the matrix in a sufficiently large feature space is low-rank. However, these nonlinear methods fail in the presence of sparse noise or outliers. In this work, we propose a new robust nonlinear factorization method called Robust Non-Linear Matrix Factorization (RNLMF). RNLMF const…
We propose a nonparametric factorization approach for sparsely observed tensors. The sparsity does not mean zero-valued entries are massive or dominated. Rather, it implies the observed entries are very few, and even fewer with the growth of the tensor; this is ubiquitous in practice. Compared with the existent works, our model not only leverages the structural information underlying the observed entry indices, but also provides extra interpretability and flexibility -- it can simultaneously estimate a set of location factors about the intrinsic properties of the tensor nodes, and another set …
Non-negative tensor factorization models enable predictive analysis on count data. Among them, Bayesian Poisson-Gamma models can derive full posterior distributions of latent factors and are less sensitive to sparse count data. However, current inference methods for these Bayesian models adopt restricted update rules for the posterior parameters. They also fail to share the update information to better cope with the data sparsity. Moreover, these models are not endowed with a component that handles the imbalance in count data values. In this paper, we propose a novel variational auto-encoder f…
Carnegie Mellon University（卡内基梅隆大学）；University of Minnesota（明尼苏达大学）
How can we correlate neural activity in the human brain as it responds to words, with behavioral data expressed as answers to questions about these same words? In short, we want to find latent variables, that explain both the brain activity, as well as the behavioral responses. We show that this is an instance of the Coupled Matrix-Tensor Factorization (CMTF) problem. We propose Scoup-SMT, a novel, fast, and parallel algorithm that solves the CMTF problem and produces a sparse latent low-rank subspace of the data. In our experiments, we find that Scoup-SMT is 50-100 times faster than a state-o…
Nonnegative matrix factorization (NMF) with group sparsity constraints is formulated as a probabilistic graphical model and, assuming some observed data have been generated by the model, a feasible variational Bayesian algorithm is derived for learning model parameters. When used in a supervised learning scenario, NMF is most often utilized as an unsupervised feature extractor followed by classification in the obtained feature subspace. Having mapped the class labels to a more general concept of groups which underlie sparsity of the coefficients, what the proposed group sparse NMF model allows…
Université de Lyon（里昂大学）；ENS de Lyon（里昂高等师范学院）；UCBL（里昂克洛德·贝尔纳大学）；CNRS（法国国家科学研究中心）；Inria（法国国家信息与自动化研究所）
Sparse matrix factorization is the problem of approximating a matrix $\mathbf{Z}$ by a product of $J$ sparse factors $\mathbf{X}^{(J)} \mathbf{X}^{(J-1)} \ldots \mathbf{X}^{(1)}$. This paper focuses on identifiability issues that appear in this problem, in view of better understanding under which sparsity constraints the problem is well-posed. We give conditions under which the problem of factorizing a matrix into \emph{two} sparse factors admits a unique solution, up to unavoidable permutation and scaling equivalences. Our general framework considers an arbitrary family of prescribed sparsity…
Due to recent explosion of text data, researchers have been overwhelmed by ever-increasing volume of articles produced by different research communities. Various scholarly search websites, citation recommendation engines, and research databases have been created to simplify the text search tasks. However, it is still difficult for researchers to be able to identify potential research topics without doing intensive reviews on a tremendous number of articles published by journals, conferences, meetings, and workshops. In this paper, we consider a novel topic diffusion discovery technique that in…
Non-negative matrix factorization (NMF) is a recently developed technique for finding parts-based, linear representations of non-negative data. Although it has successfully been applied in several applications, it does not always result in parts-based representations. In this paper, we show how explicitly incorporating the notion of `sparseness' improves the found decompositions. Additionally, we provide complete MATLAB code both for standard NMF and for our extension. Our hope is that this will further the application of these methods to solving novel data-analysis problems.
Stanford University（斯坦福大学）；Université Paris-Est（巴黎东大学）；Ecole des Ponts - ParisTech（巴黎高科桥路学院）；Mines ParisTech（巴黎高科矿业学院）；PSL Research University（巴黎文理研究大学）；Institut Curie（居里研究所）；INSERM（法国国家健康与医学研究院）
Based on a new atomic norm, we propose a new convex formulation for sparse matrix factorization problems in which the number of nonzero elements of the factors is assumed fixed and known. The formulation counts sparse PCA with multiple factors, subspace clustering and low-rank sparse bilinear regression as potential applications. We compute slow rates and an upper bound on the statistical dimension of the suggested norm for rank 1 matrices, showing that its statistical dimension is an order of magnitude smaller than the usual $\ell\_1$-norm, trace norm and their combinations. Even though our c…
Qingdao University（青岛大学）；Harbin Institute of Technology（哈尔滨工业大学）；University of Electronic Science and Technology of China（电子科技大学）；University of Kentucky（肯塔基大学）
Nonnegative matrix factorization (NMF) has been widely studied in recent years due to its effectiveness in representing nonnegative data with parts-based representations. For NMF, a sparser solution implies better parts-based representation.However, current NMF methods do not always generate sparse solutions.In this paper, we propose a new NMF method with log-norm imposed on the factor matrices to enhance the sparseness.Moreover, we propose a novel column-wisely sparse norm, named $\ell_{2,\log}$-(pseudo) norm to enhance the robustness of the proposed method.The $\ell_{2,\log}$-(pseudo) norm i…
Univ. de Lyon（里昂大学）；ENS de Lyon（里昂高等师范学院）；UCBL（里昂第一大学）；CNRS（法国国家科学研究中心）；Inria（法国国家信息与自动化研究所）
Fast transforms correspond to factorizations of the form $\mathbf{Z} = \mathbf{X}^{(1)} \ldots \mathbf{X}^{(J)}$, where each factor $ \mathbf{X}^{(\ell)}$ is sparse and possibly structured. This paper investigates essential uniqueness of such factorizations, i.e., uniqueness up to unavoidable scaling ambiguities. Our main contribution is to prove that any $N \times N$ matrix having the so-called butterfly structure admits an essentially unique factorization into $J$ butterfly factors (where $N = 2^{J}$), and that the factors can be recovered by a hierarchical factorization method, which consis…
Matrix factorization (MF) and Autoencoder (AE) are among the most successful approaches of unsupervised learning. While MF based models have been extensively exploited in the graph modeling and link prediction literature, the AE family has not gained much attention. In this paper we investigate both MF and AE's application to the link prediction problem in sparse graphs. We show the connection between AE and MF from the perspective of multiview learning, and further propose MF+AE: a model training MF and AE jointly with shared parameters. We apply dropout to training both the MF and AE parts, …
Laboratoire d’Informatique de l’Ecole Normale Supérieure（巴黎高等师范学院计算机实验室）
We present a convex formulation of dictionary learning for sparse signal decomposition. Convexity is obtained by replacing the usual explicit upper bound on the dictionary size by a convex rank-reducing term similar to the trace norm. In particular, our formulation introduces an explicit trade-off between size and sparsity of the decomposition of rectangular matrices. Using a large set of synthetic examples, we compare the estimation abilities of the convex and non-convex approaches, showing that while the convex formulation has a single local minimum, this may lead in some cases to performanc…
Bridging the Gap between Sparse Matrix Reordering and Factorization: A Deep Learning Framework for Fill-in Reduction
Institute of Software, Chinese Academy of Sciences, Beijing, China（中国科学院软件研究所，北京，中国）；University of Chinese Academy of Sciences, Beijing, China（中国科学院大学，北京，中国）
We derive analytical expression of matrix factorization/completion solution by variational Bayes method, under the assumption that observed matrix is originally the product of low-rank dense and sparse matrices with additive noise. We assume the prior of sparse matrix is Laplace distribution by taking matrix sparsity into consideration. Then we use several approximations for derivation of matrix factorization/completion solution. By our solution, we also numerically evaluate the performance of sparse matrix reconstruction in matrix factorization, and completion of missing matrix element in mat…
Tsinghua University（清华大学）；Microsoft Research（微软研究院）；Facebook AI（脸书人工智能研究院）；Beijing National Research Center for Information Science and Technology (BNRist)（北京信息科学与技术国家研究中心）
We study the problem of large-scale network embedding, which aims to learn latent representations for network mining applications. Previous research shows that 1) popular network embedding benchmarks, such as DeepWalk, are in essence implicitly factorizing a matrix with a closed form, and 2)the explicit factorization of such matrix generates more powerful embeddings than existing methods. However, directly constructing and factorizing this matrix---which is dense---is prohibitively expensive in terms of both time and space, making it not scalable for large networks. In this work, we present th…
Brain networks in fMRI are typically identified using spatial independent component analysis (ICA), yet mathematical constraints such as sparse coding and positivity both provide alternate biologically-plausible frameworks for generating brain networks. Non-negative Matrix Factorization (NMF) would suppress negative BOLD signal by enforcing positivity. Spatial sparse coding algorithms ($L1$ Regularized Learning and K-SVD) would impose local specialization and a discouragement of multitasking, where the total observed activity in a single voxel originates from a restricted number of possible br…
University of Mons（蒙斯大学）；Univ Rennes（雷恩大学）；Inria（法国国家信息与自动化研究所）；CNRS（法国国家科学研究中心）；IRISA（法国雷恩信息与自动化系统研究所）
We propose a new variant of nonnegative matrix factorization (NMF), combining separability and sparsity assumptions. Separability requires that the columns of the first NMF factor are equal to columns of the input matrix, while sparsity requires that the columns of the second NMF factor are sparse. We call this variant sparse separable NMF (SSNMF), which we prove to be NP-complete, as opposed to separable NMF which can be solved in polynomial time. The main motivation to consider this new model is to handle underdetermined blind source separation problems, such as multispectral image unmixing.…
We consider the problem of learning low-dimensional representations for large-scale Markov chains. We formulate the task of representation learning as that of mapping the state space of the model to a low-dimensional state space, called the kernel space. The kernel space contains a set of meta states which are desired to be representative of only a small subset of original states. To promote this structural property, we constrain the number of nonzero entries of the mappings between the state space and the kernel space. By imposing the desired characteristics of the representation, we cast the…
Central China Normal University（华中师范大学）；The University of Hong Kong（香港大学）
In this paper, we study the sparse nonnegative tensor factorization and completion problem from partial and noisy observations for third-order tensors. Because of sparsity and nonnegativity, the underlying tensor is decomposed into the tensor-tensor product of one sparse nonnegative tensor and one nonnegative tensor. We propose to minimize the sum of the maximum likelihood estimation for the observations with nonnegativity constraints and the tensor $\ell_0$ norm for the sparse factor. We show that the error bounds of the estimator of the proposed model can be established under general noise o…
In this work, we study a variant of nonnegative matrix factorization where we wish to find a symmetric factorization of a given input matrix into a sparse, Boolean matrix. Formally speaking, given $\mathbf{M}\in\mathbb{Z}^{m\times m}$, we want to find $\mathbf{W}\in\{0,1\}^{m\times r}$ such that $\| \mathbf{M} - \mathbf{W}\mathbf{W}^\top \|_0$ is minimized among all $\mathbf{W}$ for which each row is $k$-sparse. This question turns out to be closely related to a number of questions like recovering a hypergraph from its line graph, as well as reconstruction attacks for private neural network tr…
University of Massachusetts Amherst（马萨诸塞大学阿默斯特分校）；Columbia University（哥伦比亚大学）；Microsoft Research（微软研究院）
We present a Bayesian tensor factorization model for inferring latent group structures from dynamic pairwise interaction patterns. For decades, political scientists have collected and analyzed records of the form "country $i$ took action $a$ toward country $j$ at time $t$"---known as dyadic events---in order to form and test theories of international relations. We represent these event data as a tensor of counts and develop Bayesian Poisson tensor factorization to infer a low-dimensional, interpretable representation of their salient patterns. We demonstrate that our model's predictive perform…
Group-Sparse Matrix Factorization for Transfer Learning of Word Embeddings
W. P. Carey School of Business, Arizona State University（亚利桑那州立大学韦伯商学院）；University of Pennsylvania（宾夕法尼亚大学）；Wharton School, University of Pennsylvania（宾夕法尼亚大学沃顿商学院）
The Chinese University of Hong Kong, Shenzhen（香港中文大学（深圳））；University of Science and Technology of China（中国科学技术大学）；Shenzhen Research Institute of Big Data（深圳市大数据研究院）；Warshel Institute for Computational Biology, The Chinese University of Hong Kong, Shenzhen（香港中文大学（深圳）瓦谢尔计算生物研究院）
Non-negative matrix factorization (NMF) is a powerful tool for dimensionality reduction and clustering. Unfortunately, the interpretation of the clustering results from NMF is difficult, especially for the high-dimensional biological data without effective feature selection. In this paper, we first introduce a row-sparse NMF with $\ell_{2,0}$-norm constraint (NMF_$\ell_{20}$), where the basis matrix $W$ is constrained by the $\ell_{2,0}$-norm, such that $W$ has a row-sparsity pattern with feature selection. It is a challenge to solve the model, because the $\ell_{2,0}$-norm is non-convex and n…
Georgia Institute of Technology（佐治亚理工学院）；Hong Kong Baptist University（香港浸会大学）；Sutter Health（萨特健康医疗集团）；IQVIA（艾昆纬公司）；Emory University（埃默里大学）；University of Illinois at Urbana-Champaign（伊利诺伊大学厄巴纳-香槟分校）
Existing tensor factorization methods assume that the input tensor follows some specific distribution (i.e. Poisson, Bernoulli, and Gaussian), and solve the factorization by minimizing some empirical loss functions defined based on the corresponding distribution. However, it suffers from several drawbacks: 1) In reality, the underlying distributions are complicated and unknown, making it infeasible to be approximated by a simple distribution. 2) The correlation across dimensions of the input tensor is not well utilized, leading to sub-optimal performance. Although heuristics were proposed to i…
Graphical model for factorization and completion of relatively high rank tensors by sparse sampling
D3 Center, Osaka University（大阪大学D3中心）；Department of Physics, Graduate School of Science, Osaka University（大阪大学理学研究生院物理学科）；Department of Systems Science, Graduate School of Informatics, Kyoto University（京都大学信息学研究生院系统科学学科）；RIKEN center for AIP（RIKEN AIP研究中心）
NIMFA is an open-source Python library that provides a unified interface to nonnegative matrix factorization algorithms. It includes implementations of state-of-the-art factorization methods, initialization approaches, and quality scoring. It supports both dense and sparse matrix representation. NIMFA's component-based implementation and hierarchical design should help the users to employ already implemented techniques or design and code new strategies for matrix factorization tasks.
In this work, we examine the security of InstaHide, a scheme recently proposed by [Huang, Song, Li and Arora, ICML'20] for preserving the security of private datasets in the context of distributed learning. To generate a synthetic training example to be shared among the distributed learners, InstaHide takes a convex combination of private feature vectors and randomly flips the sign of each entry of the resulting vector with probability 1/2. A salient question is whether this scheme is secure in any provable sense, perhaps under a plausible hardness assumption and assuming the distributions gen…
We revisit the problem of predicting directional movements of stock prices based on news articles: here our algorithm uses daily articles from The Wall Street Journal to predict the closing stock prices on the same day. We propose a unified latent space model to characterize the "co-movements" between stock prices and news articles. Unlike many existing approaches, our new model is able to simultaneously leverage the correlations: (a) among stock prices, (b) among news articles, and (c) between stock prices and news articles. Thus, our model is able to make daily predictions on more than 500 s…
Sparse Hyperparametric Itakura-Saito Nonnegative Matrix Factorization via Bi-Level Optimization
organization= Water Research Institute - National Research Council (IRSA-CNR) , country= Italy；organization= Department of Mathematics, University of Bari Aldo Moro , country= Italy；organization= School of Electronics；Computer Science, University of Southampton , country= UK；organization= Faculty of Electronics, Photonics；Microsystems, Wroc aw University of Science
Factorization machines (FMs) are machine learning predictive models based on second-order feature interactions and FMs with sparse regularization are called sparse FMs. Such regularizations enable feature selection, which selects the most relevant features for accurate prediction, and therefore they can contribute to the improvement of the model accuracy and interpretability. However, because FMs use second-order feature interactions, the selection of features often causes the loss of many relevant feature interactions in the resultant models. In such cases, FMs with regularization specially d…
Norwegian University of Science and Technology（挪威科技大学）
Square matrices appear in many machine learning problems and models. Optimization over a large square matrix is expensive in memory and in time. Therefore an economic approximation is needed. Conventional approximation approaches factorize the square matrix into a number matrices of much lower ranks. However, the low-rank constraint is a performance bottleneck if the approximated matrix is intrinsically high-rank or close to full rank. In this paper, we propose to approximate a large square matrix with a product of sparse full-rank matrices. In the approximation, our method needs only $N(\log …
Optimal transport (OT) naturally arises in a wide range of machine learning applications but may often become the computational bottleneck. Recently, one line of works propose to solve OT approximately by searching the \emph{transport plan} in a low-rank subspace. However, the optimal transport plan is often not low-rank, which tends to yield large approximation errors. For example, when Monge's \emph{transport map} exists, the transport plan is full rank. This paper concerns the computation of the OT distance with adequate accuracy and efficiency. A novel approximation for OT is proposed, in …
Many predictive tasks of web applications need to model categorical variables, such as user IDs and demographics like genders and occupations. To apply standard machine learning techniques, these categorical predictors are always converted to a set of binary features via one-hot encoding, making the resultant feature vector highly sparse. To learn from such sparse data effectively, it is crucial to account for the interactions between features. Factorization Machines (FMs) are a popular solution for efficiently using the second-order feature interactions. However, FM models feature interaction…
University of Connecticut（康涅狄格大学）；University of Science and Technology of China（中国科学技术大学）
The sparse factorization of a large matrix is fundamental in modern statistical learning. In particular, the sparse singular value decomposition and its variants have been utilized in multivariate regression, factor analysis, biclustering, vector time series modeling, among others. The appeal of this factorization is owing to its power in discovering a highly-interpretable latent association network, either between samples and variables or between responses and predictors. However, many existing methods are either ad hoc without a general performance guarantee, or are computationally intensive…
