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We report the results of our study of approved drugs as potential treatments for COVID 19, based on the application of various bioinformatics predictive methods. The drugs studied include chloroquine, ivermectin, remdesivir, sofosbuvir,…

Biomolecules · Quantitative Biology 2020-08-11 Ognjen Perišić

Existing methods to estimate the prevalence of chronic hepatitis C (HCV) in New York City (NYC) are limited in scope and fail to assess hard-to-reach subpopulations with highest risk such as injecting drug users (IDUs). To address these…

Applications · Statistics 2018-01-16 Sarah Tan , Susanna Makela , Daliah Heller , Kevin Konty , Sharon Balter , Tian Zheng , James H. Stark

Amid the pandemic of 2019 novel coronavirus disease (COVID-19) infected by SARS-CoV-2, a vast amount of drug research for prevention and treatment has been quickly conducted, but these efforts have been unsuccessful thus far. Our objective…

Quantitative Methods · Quantitative Biology 2022-02-03 Kanglin Hsieh , Yinyin Wang , Luyao Chen , Zhongming Zhao , Sean Savitz , Xiaoqian Jiang , Jing Tang , Yejin Kim

This paper studies the confounding effects from the unmeasured confounders and the imbalance of observed confounders in IV regression and aims at unbiased causal effect estimation. Recently, nonlinear IV estimators were proposed to allow…

Artificial Intelligence · Computer Science 2022-11-21 Anpeng Wu , Kun Kuang , Ruoxuan Xiong , Bo Li , Fei Wu

Using the virial theorem of the heavy-quark effective theory, we show that the mixing of the operator for the heavy-quark kinetic energy with the identity operator is forbidden at the one-loop order by Lorentz invariance. This explains why…

High Energy Physics - Phenomenology · Physics 2009-10-30 Matthias Neubert

Immune checkpoint inhibitors (ICIs) have transformed cancer treatment, yet patient responses remain highly variable, and the biological mechanisms underlying resistance are poorly understood. While machine learning models hold promise for…

Machine Learning · Computer Science 2025-08-27 Ifrah Tariq , Ernest Fraenkel

The pharmaceutical success of atorvastatin (ATV), a widely employed drug against the "bad" cholesterol (LDL) and cardiovascular diseases, traces back to its ability to scavenge free radicals. Unfortunately, information on its antioxidant…

Chemical Physics · Physics 2022-08-18 Ioan Baldea

Often both Aggregate Data (AD) studies and Individual Patient Data (IPD) studies are available for specific treatments. Combining these two sources of data could improve the overall meta-analytic estimates of treatment effects. Moreover,…

Methodology · Statistics 2021-11-15 Neha Agarwala , Junyong Park , Anindya Roy

We present an indirect signal processing-based measurement method for biological quantities in humans that cannot be directly measured. We develop the method by focusing on estimating hepatic enzyme and drug transporter activity through…

Quantitative Methods · Quantitative Biology 2021-01-01 Yoko Franchetti , Thomas D. Nolin , Franz Franchetti

There is a dearth of robust methods to estimate the causal effects of multiple treatments when the outcome is binary. This paper uses two unique sets of simulations to propose and evaluate the use of Bayesian Additive Regression Trees…

Methodology · Statistics 2020-01-22 Liangyuan Hu , Chenyang Gu , Michael Lopez , Jiayi Ji , Juan Wisnivesky

Multivalent virus binding inhibitors are a promising new class of antivirals, preventing virus infection of cells by inhibiting the first step in the viral infection cycle - binding of viruses to the cell surface. The design of multivalent…

Molecular dynamics (MD) simulation with modified Brenner's reactive empirical bond order (REBO) potential is a powerful tool to investigate plasma wall interaction on divertor plates in a nuclear fusion device. However, MD simulation box's…

Materials Science · Physics 2015-05-19 Seiki Saito , Atsushi M. Ito , Arimichi Takayama , Takahiro Kenmotsu , Hiroaki Nakamura

Hepatitis B is a potentially life-threatening liver infection caused by the hepatitis B virus (HBV). In this paper, the transmission dynamics of hepatitis B is formulated with a mathematical model with considerations of different classes of…

Populations and Evolution · Quantitative Biology 2023-06-01 Blessing O. Emerenini , Simeon C. Inyama

We propose a fusion approach that combines features from simultaneously recorded electroencephalographic (EEG) and magnetoencephalographic (MEG) signals to improve classification performances in motor imagery-based brain-computer interfaces…

There is growing interest in developing causal inference methods for multi-valued treatments with a focus on pairwise average treatment effects. Here we focus on a clinically important, yet less-studied estimand: causal drug-drug…

Methodology · Statistics 2022-09-20 Di Shu , Peisong Han , Sean Hennessy , Todd A Miano

One of the promising methods for the treatment of complex diseases such as cancer is combinational therapy. Due to the combinatorial complexity, machine learning models can be useful in this field, where significant improvements have…

Machine Learning · Computer Science 2020-01-08 Işıksu Ekşioğlu , Mehmet Tan

Graphynes offer a chemically heterogeneous $sp/sp^{2}$ carbon framework with distinct electronic regimes and site-selective reactivity. Here, Density Functional Theory and Reactive Molecular Dynamics Simulations are combined to evaluate…

Simultaneous administration of multiple drugs can have synergistic or antagonistic effects as one drug can affect activities of other drugs. Synergistic effects lead to improved therapeutic outcomes, whereas, antagonistic effects can be…

Computation and Language · Computer Science 2017-08-15 Sunil Kumar Sahu , Ashish Anand

Traditional model-based image reconstruction (MBIR) methods combine forward and noise models with simple object priors. Recent application of deep learning methods for image reconstruction provides a successful data-driven approach to…

Image and Video Processing · Electrical Eng. & Systems 2022-05-20 Ling Chen , Zhishen Huang , Yong Long , Saiprasad Ravishankar

COMpression with Bayesian Implicit NEural Representations (COMBINER) is a recent data compression method that addresses a key inefficiency of previous Implicit Neural Representation (INR)-based approaches: it avoids quantization and enables…

Machine Learning · Computer Science 2024-03-08 Jiajun He , Gergely Flamich , Zongyu Guo , José Miguel Hernández-Lobato