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Accurate gene regulatory networks can be used to explain the emergence of different phenotypes, disease mechanisms, and other biological functions. Many methods have been proposed to infer networks from gene expression data but have been…

Quantitative Methods · Quantitative Biology 2018-12-11 Phan Nguyen , Rosemary Braun

This work considers estimation and forecasting in a multivariate, possibly high-dimensional count time series model constructed from a transformation of a latent Gaussian dynamic factor series. The estimation of the latent model parameters…

Methodology · Statistics 2025-04-07 Younghoon Kim , Marie-Christine Düker , Zachary F. Fisher , Vladas Pipiras

We propose a general framework for non-normal multivariate data analysis called multivariate covariance generalized linear models (McGLMs), designed to handle multivariate response variables, along with a wide range of temporal and spatial…

Methodology · Statistics 2017-04-25 Wagner Hugo Bonat , Bent Jørgensen

Reliable traffic flow prediction is crucial to creating intelligent transportation systems. Many big-data-based prediction approaches have been developed but they do not reflect complicated dynamic interactions between roads considering…

Machine Learning · Computer Science 2023-06-21 Won Kyung Lee , Deuk Sin Kwon , So Young Sohn

This paper presents an exploration of Long Short-Term Memory (LSTM) networks in the realm of text generation, focusing on the utilization of historical datasets for Shakespeare and Nietzsche. LSTMs, known for their effectiveness in handling…

Computation and Language · Computer Science 2024-03-13 Mustafa Abbas Hussein Hussein , Serkan Savaş

In this paper we present BayesLDM, a system for Bayesian longitudinal data modeling consisting of a high-level modeling language with specific features for modeling complex multivariate time series data coupled with a compiler that can…

Gaussian processes offer an attractive framework for predictive modeling from longitudinal data, i.e., irregularly sampled, sparse observations from a set of individuals over time. However, such methods have two key shortcomings: (i) They…

Machine Learning · Statistics 2020-12-09 Junjie Liang , Yanting Wu , Dongkuan Xu , Vasant Honavar

The huge wealth of data in the health domain can be exploited to create models that predict development of health states over time. Temporal learning algorithms are well suited to learn relationships between health states and make…

Neural and Evolutionary Computing · Computer Science 2019-04-12 Mark Hoogendoorn , Ward van Breda , Jeroen Ruwaard

Deep generative models provide a systematic way to learn nonlinear data distributions, through a set of latent variables and a nonlinear "generator" function that maps latent points into the input space. The nonlinearity of the generator…

Machine Learning · Statistics 2021-12-14 Georgios Arvanitidis , Lars Kai Hansen , Søren Hauberg

Many important problems can be modeled as a system of interconnected entities, where each entity is recording time-dependent observations or measurements. In order to spot trends, detect anomalies, and interpret the temporal dynamics of…

Machine Learning · Computer Science 2017-06-13 David Hallac , Youngsuk Park , Stephen Boyd , Jure Leskovec

In recent years, generative pre-trained paradigms such as Large Language Models (LLMs) and Large Vision Models (LVMs) have achieved revolutionary advancements and widespread real-world applications. Particularly, the emergence of…

Computational Engineering, Finance, and Science · Computer Science 2024-06-05 Jiarui Yang , Tao Dai , Naiqi Li , Junxi Wu , Peiyuan Liu , Jinmin Li , Jigang Bao , Haigang Zhang , Shutao Xia

Probabilistic programming languages represent complex data with intermingled models in a few lines of code. Efficient inference algorithms in probabilistic programming languages make possible to build unified frameworks to compute…

Machine Learning · Statistics 2016-07-15 Anh Tong , Jaesik Choi

We put forward a new Bayesian modeling strategy for spatiotemporal count data that enables efficient posterior sampling. Most previous models for such data decompose logarithms of the response Poisson rates into fixed effects and spatial…

Methodology · Statistics 2025-07-29 Yifan Cheng , Cheng Li

Due to the ease of modern data collection, applied statisticians often have access to a large set of covariates that they wish to relate to some observed outcome. Generalized linear models (GLMs) offer a particularly interpretable framework…

Computation · Statistics 2019-05-21 Brian L. Trippe , Jonathan H. Huggins , Raj Agrawal , Tamara Broderick

Dynamic linear models (DLM) offer a very generic framework to analyse time series data. Many classical time series models can be formulated as DLMs, including ARMA models and standard multiple linear regression models. The models can be…

Methodology · Statistics 2019-08-20 Marko Laine

In this work, we propose a novel probabilistic sequence model that excels at capturing high variability in time series data, both across sequences and within an individual sequence. Our method uses temporal latent variables to capture…

Machine Learning · Computer Science 2020-02-26 Ruizhi Deng , Yanshuai Cao , Bo Chang , Leonid Sigal , Greg Mori , Marcus A. Brubaker

A body of recent work in modeling neural activity focuses on recovering low-dimensional latent features that capture the statistical structure of large-scale neural populations. Most such approaches have focused on linear generative models,…

Neurons and Cognition · Quantitative Biology 2016-10-26 Yuanjun Gao , Evan Archer , Liam Paninski , John P. Cunningham

Temporal Knowledge Graphs (TKGs) represent dynamic facts as timestamped relations between entities. TKG completion involves forecasting missing or future links, requiring models to reason over time-evolving structure. While LLMs show…

Machine Learning · Computer Science 2025-05-26 Ömer Faruk Akgül , Feiyu Zhu , Yuxin Yang , Rajgopal Kannan , Viktor Prasanna

Modeling response surfaces with abrupt jumps and discontinuities remains a major challenge across scientific and engineering domains. Although Gaussian process models excel at capturing smooth nonlinear relationships, their stationarity…

Machine Learning · Statistics 2025-12-16 Isaac Adjetey , Yiyuan She

Planning is a powerful approach to control problems with known environment dynamics. In unknown environments the agent needs to learn a model of the system dynamics to make planning applicable. This is particularly challenging when the…

Machine Learning · Computer Science 2020-05-11 Nathanael Bosch , Jan Achterhold , Laura Leal-Taixé , Jörg Stückler