GENIX enables comparative network analysis of single-cell RNA sequencing to reveal signatures of therapeutic interventions

N Nouri, G Gaglia, H Mattoo, E de Rinaldis… - Cell Reports Methods, 2024 - cell.com
Single-cell RNA sequencing (scRNA-seq) has transformed our understanding of cellular
responses to perturbations such as therapeutic interventions and vaccines. Gene relevance …

Nonstationary modeling with sparsity for spatial data via the basis graphical lasso

M Krock, W Kleiber, S Becker - Journal of Computational and …, 2021 - Taylor & Francis
Many modern spatial models express the stochastic variation component as a basis
expansion with random coefficients. Low rank models, approximate spectral …

Robust online covariance and sparse precision estimation under arbitrary data corruption

T Yao, S Sundaram - 2023 62nd IEEE Conference on Decision …, 2023 - ieeexplore.ieee.org
Gaussian graphical models are widely used to represent correlations among entities but
remain vulnerable to data corruption. In this work, we introduce a modified trimmed-inner …

Modeling Massive Highly Multivariate Nonstationary Spatial Data with the Basis Graphical Lasso

ML Krock, W Kleiber, D Hammerling… - … of Computational and …, 2023 - Taylor & Francis
We propose a new modeling framework for highly multivariate spatial processes that
synthesizes ideas from recent multiscale and spectral approaches with graphical models …

Efficient inference of spatially-varying Gaussian Markov random fields with applications in gene regulatory networks

V Ravikumar, T Xu, WN Al-Holou… - … /ACM Transactions on …, 2023 - ieeexplore.ieee.org
In this paper, we study the problem of inferring spatially-varying Gaussian Markov random
fields (SV-GMRF) where the goal is to learn a network of sparse, context-specific GMRFs …

Solution Path of Time-varying Markov Random Fields with Discrete Regularization

S Fattahi, A Gómez - arXiv preprint arXiv:2307.13750, 2023 - arxiv.org
We study the problem of inferring sparse time-varying Markov random fields (MRFs) with
different discrete and temporal regularizations on the parameters. Due to the intractability of …

Online estimation of sparse inverse covariances

T Yao, S Sundaram - 2021 American Control Conference (ACC), 2021 - ieeexplore.ieee.org
Gaussian graphical models have been well studied as a way to represent the relationships
between various entities, and numerous algorithms have been proposed to learn the …

Measurement of feedback in voice control and application in predicting and reducing stuttering using machine learning

L Barrett - 2024 - discovery.ucl.ac.uk
How the brain uses feedback information during speech to maintain fluency is a complex
and unresolved process. Additionally, how alterations to feedback can be utilized for speech …

Composite convex optimization with global and local inexact oracles

T Sun, I Necoara, Q Tran-Dinh - Computational Optimization and …, 2020 - Springer
We introduce new global and local inexact oracle concepts for a wide class of convex
functions in composite convex minimization. Such inexact oracles naturally arise in many …

New Approaches Towards Online, Distributed, and Robust Learning of Statistical Properties of Data

T Yao - 2023 - search.proquest.com
In this thesis, we present algorithms to allow agents to estimate certain properties in a
robust, online, and distributed manner. Each agent receives a sequence of observations …