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Sequence-based protein homology detection has been extensively studied and so far the most sensitive method is based upon comparison of protein sequence profiles, which are derived from multiple sequence alignment (MSA) of sequence homologs…

Quantitative Methods · Quantitative Biology 2015-06-18 Jianzhu Ma , Sheng Wang , Zhiyong Wang , Jinbo Xu

The alignment of shapes has been a crucial step in statistical shape analysis, for example, in calculating mean shape, detecting locational differences between two shape populations, and classification. Procrustes alignment is the most…

Methodology · Statistics 2025-01-06 Mohsen Taheri , Jörn Schulz

Graph-based variational methods have recently shown to be highly competitive for various classification problems of high-dimensional data, but are inherently difficult to handle from an optimization perspective. This paper proposes a convex…

Optimization and Control · Mathematics 2017-02-17 Egil Bae , Ekaterina Merkurjev

This work studies fundamental limits for recovering the underlying correspondence among multiple correlated graphs. In the setting of inhomogeneous random graphs, we present and analyze a matching algorithm: first partially match the graphs…

Data Structures and Algorithms · Computer Science 2025-07-01 Taha Ameen , Bruce Hajek

Many robotics applications require alignment and fusion of observations obtained at multiple views to form a global model of the environment. Multi-way data association methods provide a mechanism to improve alignment accuracy of pairwise…

Robotics · Computer Science 2020-03-06 Kaveh Fathian , Kasra Khosoussi , Yulun Tian , Parker Lusk , Jonathan P. How

Detecting latent confounders from proxy variables is an essential problem in causal effect estimation. Previous approaches are limited to low-dimensional proxies, sorted proxies, and binary treatments. We remove these assumptions and…

Machine Learning · Statistics 2024-03-22 Nathan Mankovich , Homer Durand , Emiliano Diaz , Gherardo Varando , Gustau Camps-Valls

This paper is about a curious phenomenon. Suppose we have a data matrix, which is the superposition of a low-rank component and a sparse component. Can we recover each component individually? We prove that under some suitable assumptions,…

Information Theory · Computer Science 2009-12-21 Emmanuel J. Candes , Xiaodong Li , Yi Ma , John Wright

Over the years, Principal Component Analysis (PCA) has served as the baseline approach for dimensionality reduction in gene expression data analysis. It primary objective is to identify a subset of disease-causing genes from a vast pool of…

Algebraic Topology · Mathematics 2023-06-13 Sean Cottrell , Rui Wang , Guowei Wei

How to extract useful insights from data is always a challenge, especially if the data is multidimensional. Often, the data can be organized according to certain hierarchical structure that are stemmed either from data collection process or…

Applications · Statistics 2016-04-21 Kun Yang , Wing Hung Wong

Deep learning approaches to the segmentation of magnetic resonance images have shown significant promise in automating the quantitative analysis of brain images. However, a continuing challenge has been its sensitivity to the variability of…

Image and Video Processing · Electrical Eng. & Systems 2021-03-05 Dzung L. Pham , Yi-Yu Chou , Blake E. Dewey , Daniel S. Reich , John A. Butman , Snehashis Roy

The PARAFAC2 is a multimodal factor analysis model suitable for analyzing multi-way data when one of the modes has incomparable observation units, for example because of differences in signal sampling or batch sizes. A fully probabilistic…

Problems with localized nonhomogeneous material properties present well-known challenges for numerical simulations. In particular, such problems may feature large differences in length scales, causing difficulties with meshing and…

Numerical Analysis · Mathematics 2021-11-23 Alex Viguerie , Silvia Bertoluzza , Alessandro Veneziani , Ferdinando Auricchio

Data-driven decompositions are becoming essential tools in fluid dynamics, allowing for tracking the evolution of coherent patterns in large datasets, and for constructing low order models of complex phenomena. In this work, we analyze the…

Fluid Dynamics · Physics 2020-04-15 M. A. Mendez , M. Balabane , J. -M. Buchlin

Accurate computational ptychographic phase reconstructions are enabled by fast direct-electron cameras with high dynamic ranges used for four-dimensional scanning transmission electron microscopy (4D-STEM). The availability of open software…

Materials Science · Physics 2025-05-01 Toma Susi

Domain shifts are ubiquitous in machine learning, and can substantially degrade a model's performance when deployed to real-world data. To address this, distribution alignment methods aim to learn feature representations which are invariant…

Machine Learning · Computer Science 2024-10-08 Andrea Napoli , Paul White

Multiscale mixed methods based on non-overlapping domain decompositions can efficiently handle the solution of significant subsurface flow problems in very heterogeneous formations of interest to the industry, especially when implemented on…

Numerical Analysis · Mathematics 2025-02-25 Dilong Zhou , Rafael Guiraldello , Felipe Pereira

Principal Component Analysis is a key technique for reducing the complexity of high-dimensional data while preserving its fundamental data structure, ensuring models remain stable and interpretable. This is achieved by transforming the…

Methodology · Statistics 2025-03-25 Nuwan Weeraratne , Lyn Hunt , Jason Kurz

Confocal microscopy in combination with real-space particle tracking has proven to be a powerful tool in scientific fields such as soft matter physics, materials science and cell biology. However, 3D tracking of anisotropic particles in…

Soft Condensed Matter · Physics 2015-05-20 T. H. Besseling , M. Hermes , A. Kuijk , B. de Nijs , T. -S. Deng , M. Dijkstra , A. Imhof , A. van Blaaderen

Multidimensional functional data streams arise in diverse scientific fields, yet their analysis poses significant challenges. We propose a novel online framework for functional principal component analysis that enables efficient and…

Methodology · Statistics 2025-05-06 Muye Nanshan , Nan Zhang , Jiguo Cao

Epigenetics plays a crucial role in understanding the underlying molecular processes of several types of cancer as well as the determination of innovative therapeutic tools. To investigate the complex interplay between genetics and…

Methodology · Statistics 2024-08-29 Iris Ivy Gauran , Patrick Wincy Reyes , Erniel Barrios , Hernando Ombao