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Deploying off-the-shelf segmentation networks on biomedical data has become common practice, yet if structures of interest in an image sequence are visible only temporarily, existing frame-by-frame methods fail. In this paper, we provide a…

Computer Vision and Pattern Recognition · Computer Science 2020-11-23 Özgün Çiçek , Yassine Marrakchi , Enoch Boasiako Antwi , Barbara Di Ventura , Thomas Brox

Motivation: Single cell RNA sequencing (scRNA-seq) data makes studying the development of cells possible at unparalleled resolution. Given that many cellular differentiation processes are hierarchical, their scRNA-seq data is expected to be…

Quantitative Methods · Quantitative Biology 2022-04-25 Quentin Garrido , Sebastian Damrich , Alexander Jäger , Dario Cerletti , Manfred Claassen , Laurent Najman , Fred Hamprecht

Single-cell RNA sequencing (scRNA-seq) enables dissecting cellular heterogeneity in tissues, resulting in numerous biological discoveries. Various computational methods have been devised to delineate cell types by clustering scRNA-seq data…

Quantitative Methods · Quantitative Biology 2023-09-18 Tram Huynh , Zixuan Cang

This paper studies the distributed optimization problem with possibly nonidentical local constraints, where its global objective function is composed of $N$ convex functions. The aim is to solve the considered optimization problem in a…

Optimization and Control · Mathematics 2022-08-26 Hongzhe Liu , Wenwu Yu , Guanghui Wen , Wei Xing Zheng

Applications such as unbalanced and fully shuffled regression can be approached by optimizing regularized optimal transport (OT) distances, such as the entropic OT and Sinkhorn distances. A common approach for this optimization is to use a…

Numerical Analysis · Mathematics 2024-10-22 Xingjie Li , Fei Lu , Molei Tao , Felix X. -F. Ye

Distributional robustness is a promising framework for training deep learning models that are less vulnerable to adversarial examples and data distribution shifts. Previous works have mainly focused on exploiting distributional robustness…

Machine Learning · Computer Science 2023-11-02 Van-Anh Nguyen , Trung Le , Anh Tuan Bui , Thanh-Toan Do , Dinh Phung

Single-cell RNA-seq data analysis typically requires representations that capture heterogeneous local structure across multiple scales while remaining stable and interpretable. In this work, we propose a hierarchical sheaf spectral…

Machine Learning · Computer Science 2026-03-31 Xiang Xiang Wang , Guo-Wei We

Distributionally robust supervised learning (DRSL) is emerging as a key paradigm for building reliable machine learning systems for real-world applications -- reflecting the need for classifiers and predictive models that are robust to the…

Machine Learning · Computer Science 2022-01-26 Yaodong Yu , Tianyi Lin , Eric Mazumdar , Michael I. Jordan

Investigations of natural variation among cells within a population are essential for understanding the stochastic nature of tissue cell deformation under applied load. In the existing literature, the population variation of single-cell…

Cell Behavior · Quantitative Biology 2011-07-14 John M. Maloney , Krystyn J. Van Vliet

The concept of mobility prediction represents one of the key enablers for an efficient management of future cellular networks, which tend to be progressively more elaborate and dense due to the aggregation of multiple technologies. In this…

Signal Processing · Electrical Eng. & Systems 2019-07-26 Giulio Siracusano , Aurelio La Corte

We consider distributed convex optimization problems originated from sample average approximation of stochastic optimization, or empirical risk minimization in machine learning. We assume that each machine in the distributed computing…

Optimization and Control · Mathematics 2015-01-05 Yuchen Zhang , Lin Xiao

Distribution data refers to a data set where each sample is represented as a probability distribution, a subject area receiving burgeoning interest in the field of statistics. Although several studies have developed…

Methodology · Statistics 2024-02-09 Ryo Okano , Masaaki Imaizumi

We study distributed optimization algorithms for minimizing the average of \emph{heterogeneous} functions distributed across several machines with a focus on communication efficiency. In such settings, naively using the classical stochastic…

Machine Learning · Computer Science 2020-11-18 Ilqar Ramazanli , Han Nguyen , Hai Pham , Sashank J. Reddi , Barnabas Poczos

The recent proliferation of Data Grids and the increasingly common practice of using resources as distributed data stores provide a convenient environment for communities of researchers to share, replicate, and manage access to copies of…

Distributed, Parallel, and Cluster Computing · Computer Science 2007-05-23 Sudharshan Vazhkudai , Jennifer M. Schopf

RNA sequencing (RNA-seq) is the conventional genome-scale approach used to capture the expression levels of all detectable genes in a biological sample. This is now regularly used for population-based studies designed to identify genetic…

Genomics · Quantitative Biology 2026-05-25 Christopher Thron , Farhad Jafari

By imitating the synaptic connectivity and plasticity of the brain, emerging electronic nanodevices offer new opportunities as the building blocks of neuromorphic systems. One challenge for largescale simulations of computational…

Neural and Evolutionary Computing · Computer Science 2022-05-11 T. Hennen , A. Elias , J. F. Nodin , G. Molas , R. Waser , D. J. Wouters , D. Bedau

With the advance of experimental techniques such as time-lapse fluorescence microscopy, the availability of single-cell trajectory data has vastly increased, and so has the demand for computational methods suitable for parameter inference…

Quantitative Methods · Quantitative Biology 2016-07-06 Irena Kuzmanovska , Andreas Milias-Argeitis , Christoph Zechner , Mustafa Khammash

Fr\'echet regression extends classical regression methods to non-Euclidean metric spaces, enabling the analysis of data relationships on complex structures such as manifolds and graphs. This work establishes a rigorous theoretical analysis…

Machine Learning · Statistics 2025-02-05 Masanari Kimura , Howard Bondell

This paper presents a novel methodology for tractably solving optimal control and offline reinforcement learning problems for high-dimensional systems. This work is motivated by the ongoing challenges of safety, computation, and optimality…

Optimization and Control · Mathematics 2022-07-06 Aaron Kandel , Saehong Park , Scott Moura

Distribution-on-distribution regression considers the problem of formulating and estimating a regression relationship where both covariate and response are probability distributions. The optimal transport distributional regression model…

Statistics Theory · Mathematics 2022-06-06 Laya Ghodrati , Victor M. Panaretos