Related papers: A robust, scalable K-statistic for quantifying imm…
Motivation: Human cancer is caused by the accumulation of somatic mutations in tumor suppressors and oncogenes within the genome. In the case of oncogenes, recent theory suggests that there are only a few key "driver" mutations responsible…
We propose a new method for clustering based on the local minimization of the \gamma-divergence, which we call the spontaneous clustering. The greatest advantage of the proposed method is that it automatically detects the number of clusters…
This dissertation is based on a project co-founded by the Health Market Quality Program (now Rozetta Institute) and the Australian Institute of Health and Welfare. The overall objective of this work is to provide a framework and a tool for…
The problem of estimating the number of clusters (say k) is one of the major challenges for the partitional clustering. This paper proposes an algorithm named k-SCC to estimate the optimal k in categorical data clustering. For the…
In the presence of unmeasured spatial confounding, spatial models may actually increase (rather than decrease) bias, leading to uncertainty as to how they should be applied in practice. We evaluated spatial modeling approaches through…
Spatial transcriptomics (ST) provides essential spatial context by mapping gene expression within tissue, enabling detailed study of cellular heterogeneity and tissue organization. However, aligning ST data with histology images poses…
Characterizing patient somatic mutations through next-generation sequencing technologies opens up possibilities for refining cancer subtypes. However, catalogues of mutations reveal that only a small fraction of the genes are altered…
Geographical data are generally autocorrelated. In this case, it is preferable to select spread units. In this paper, we propose a new method for selecting well-spread samples from a finite spatial population with equal or unequal inclusion…
Large-scale proteomic analysis is emerging as a powerful technique in biology and relies heavily on data acquired by state-of-the-art mass spectrometers. As with any other field in Systems Biology, computational tools are required to deal…
An accelerated model-based information theoretic approach is presented to perform the task of Magnetic Resonance (MR) thermal image reconstruction from a limited number of observed samples on k-space. The key idea of the proposed approach…
This paper presents a new statistical method for clustering step data, a popular form of health record data easily obtained from wearable devices. Since step data are high-dimensional and zero-inflated, classical methods such as K-means and…
We propose a hybrid method for accurately estimating the score function, i.e., the gradient of the log steady-state density, using a Gaussian Mixture Model (GMM) in conjunction with a bisecting K-means clustering step. Our approach, which…
In medical research, it is often needed to obtain subgroups with heterogeneous survivals, which have been predicted from a prognostic factor. For this purpose, a binary split has often been used once or recursively; however, binary…
This paper presents methods that quantify the structure of statistical interactions within a given data set, and was first used in \cite{Tapia2018}. It establishes new results on the k-multivariate mutual-informations (I_k) inspired by the…
Spatial omics assays allow for the molecular characterisation of cells in their spatial context. Notably, the two main technological streams, imaging-based and high-throughput sequencing-based, can give rise to very different data…
Comparing multivariate yield quality distributions across spatially referenced agricultural fields is complicated by two pervasive features: non-normality and spatial autocorrelation. Classical procedures such as ANOVA, MANOVA, and standard…
Kernel $k$-means clustering is a powerful tool for unsupervised learning of non-linearly separable data. Since the earliest attempts, researchers have noted that such algorithms often become trapped by local minima arising from…
K-Medoids(KM) is a standard clustering method, used extensively on semi-metric data.Error analyses of KM have traditionally used an in-sample notion of error,which can be far from the true error and suffer from generalization gap. We…
Numerical heating in particle-in-cell (PIC) codes currently precludes the accurate simulation of cold, relativistic plasma over long periods, severely limiting their applications in astrophysical environments. We present a spatially…
Understanding large amounts of spatiotemporal data from particle-based simulations, such as molecular dynamics, often relies on the computation and analysis of aggregate measures. These, however, by virtue of aggregation, hide structural…