Adaptive Graph via Multiple Kernel Learning for Nonnegative Matrix Factorization

Nonnegative Matrix Factorization (NMF) has been continuously evolving in several areas like pattern recognition and information retrieval methods. It factorizes a matrix into a product of 2 low-rank non-negative matrices that will define parts-based, and linear representation of nonnegative data. Recently, Graph regularized NMF (GrNMF) is proposed to find a compact representation,which uncovers the hidden semantics and simultaneously respects the intrinsic geometric structure. In GNMF, an affinity graph is constructed from the original data space to encode the geometrical information. In this paper, we propose a novel idea which engages a Multiple Kernel Learning approach into refining the graph structure that reflects the factorization of the matrix and the new data space. The GrNMF is improved by utilizing the graph refined by the kernel learning, and then a novel kernel learning method is introduced under the GrNMF framework. Our approach shows encouraging results of the proposed algorithm in comparison to the state-of-the-art clustering algorithms like NMF, GrNMF, SVD etc.Comment: This paper has been withdrawn by the author due to the terrible writin

Slingshot: cell lineage and pseudotime inference for single-cell transcriptomics.

BackgroundSingle-cell transcriptomics allows researchers to investigate complex communities of heterogeneous cells. It can be applied to stem cells and their descendants in order to chart the progression from multipotent progenitors to fully differentiated cells. While a variety of statistical and computational methods have been proposed for inferring cell lineages, the problem of accurately characterizing multiple branching lineages remains difficult to solve.ResultsWe introduce Slingshot, a novel method for inferring cell lineages and pseudotimes from single-cell gene expression data. In previously published datasets, Slingshot correctly identifies the biological signal for one to three branching trajectories. Additionally, our simulation study shows that Slingshot infers more accurate pseudotimes than other leading methods.ConclusionsSlingshot is a uniquely robust and flexible tool which combines the highly stable techniques necessary for noisy single-cell data with the ability to identify multiple trajectories. Accurate lineage inference is a critical step in the identification of dynamic temporal gene expression

Simultaneous Spectral-Spatial Feature Selection and Extraction for Hyperspectral Images

In hyperspectral remote sensing data mining, it is important to take into account of both spectral and spatial information, such as the spectral signature, texture feature and morphological property, to improve the performances, e.g., the image classification accuracy. In a feature representation point of view, a nature approach to handle this situation is to concatenate the spectral and spatial features into a single but high dimensional vector and then apply a certain dimension reduction technique directly on that concatenated vector before feed it into the subsequent classifier. However, multiple features from various domains definitely have different physical meanings and statistical properties, and thus such concatenation hasn't efficiently explore the complementary properties among different features, which should benefit for boost the feature discriminability. Furthermore, it is also difficult to interpret the transformed results of the concatenated vector. Consequently, finding a physically meaningful consensus low dimensional feature representation of original multiple features is still a challenging task. In order to address the these issues, we propose a novel feature learning framework, i.e., the simultaneous spectral-spatial feature selection and extraction algorithm, for hyperspectral images spectral-spatial feature representation and classification. Specifically, the proposed method learns a latent low dimensional subspace by projecting the spectral-spatial feature into a common feature space, where the complementary information has been effectively exploited, and simultaneously, only the most significant original features have been transformed. Encouraging experimental results on three public available hyperspectral remote sensing datasets confirm that our proposed method is effective and efficient

Communication Theoretic Data Analytics

Widespread use of the Internet and social networks invokes the generation of big data, which is proving to be useful in a number of applications. To deal with explosively growing amounts of data, data analytics has emerged as a critical technology related to computing, signal processing, and information networking. In this paper, a formalism is considered in which data is modeled as a generalized social network and communication theory and information theory are thereby extended to data analytics. First, the creation of an equalizer to optimize information transfer between two data variables is considered, and financial data is used to demonstrate the advantages. Then, an information coupling approach based on information geometry is applied for dimensionality reduction, with a pattern recognition example to illustrate the effectiveness. These initial trials suggest the potential of communication theoretic data analytics for a wide range of applications.Comment: Published in IEEE Journal on Selected Areas in Communications, Jan. 201

On The Effect of Hyperedge Weights On Hypergraph Learning

Hypergraph is a powerful representation in several computer vision, machine learning and pattern recognition problems. In the last decade, many researchers have been keen to develop different hypergraph models. In contrast, no much attention has been paid to the design of hyperedge weights. However, many studies on pairwise graphs show that the choice of edge weight can significantly influence the performances of such graph algorithms. We argue that this also applies to hypegraphs. In this paper, we empirically discuss the influence of hyperedge weight on hypegraph learning via proposing three novel hyperedge weights from the perspectives of geometry, multivariate statistical analysis and linear regression. Extensive experiments on ORL, COIL20, JAFFE, Sheffield, Scene15 and Caltech256 databases verify our hypothesis. Similar to graph learning, several representative hyperedge weighting schemes can be concluded by our experimental studies. Moreover, the experiments also demonstrate that the combinations of such weighting schemes and conventional hypergraph models can get very promising classification and clustering performances in comparison with some recent state-of-the-art algorithms