Recent advances in variational autoencoders with representation learning for biomedical informatics: A survey

R Wei, A Mahmood - Ieee Access, 2020 - ieeexplore.ieee.org
Variational autoencoders (VAEs) are deep latent space generative models that have been
immensely successful in multiple exciting applications in biomedical informatics such as …

Benchmarking machine learning models for polymer informatics: an example of glass transition temperature

L Tao, V Varshney, Y Li - Journal of Chemical Information and …, 2021 - ACS Publications
In the field of polymer informatics, utilizing machine learning (ML) techniques to evaluate the
glass transition temperature T g and other properties of polymers has attracted extensive …

Designing molecules with autoencoder networks

A Ilnicka, G Schneider - Nature Computational Science, 2023 - nature.com
Autoencoders are versatile tools in molecular informatics. These unsupervised neural
networks serve diverse tasks such as data-driven molecular representation and constructive …

Predicting polymers' glass transition temperature by a chemical language processing model

G Chen, L Tao, Y Li - Polymers, 2021 - mdpi.com
We propose a chemical language processing model to predict polymers' glass transition
temperature (T g) through a polymer language (SMILES, Simplified Molecular Input Line …

Multi-objective drug design based on graph-fragment molecular representation and deep evolutionary learning

M Mukaidaisi, A Vu, K Grantham… - Frontiers in …, 2022 - frontiersin.org
Drug discovery is a challenging process with a huge molecular space to be explored and
numerous pharmacological properties to be appropriately considered. Among various drug …

Deep evolutionary learning for molecular design

K Grantham, M Mukaidaisi, HK Ooi… - IEEE Computational …, 2022 - ieeexplore.ieee.org
In this paper, a prototypical deep evolutionary learning (DEL) process is proposed to
integrate deep generative model and multi-objective evolutionary computation for molecular …

Assessing deep generative models in chemical composition space

H Türk, E Landini, C Kunkel, JT Margraf… - Chemistry of …, 2022 - ACS Publications
The computational discovery of novel materials has been one of the main motivations
behind research in theoretical chemistry for several decades. Despite much effort, this is far …

NRC-VABS: Normalized Reparameterized Conditional Variational Autoencoder with applied beam search in latent space for drug molecule design

AS Bhadwal, K Kumar, N Kumar - Expert Systems with Applications, 2024 - Elsevier
Designing an optimal and desired drug molecule structure is a challenging problem. Most of
the existing solutions/representations reported in the literature for this problem are complex …

VAE-Sim: a novel molecular similarity measure based on a variational autoencoder

S Samanta, S O'Hagan, N Swainston, TJ Roberts… - Molecules, 2020 - mdpi.com
Molecular similarity is an elusive but core “unsupervised” cheminformatics concept, yet
different “fingerprint” encodings of molecular structures return very different similarity values …

[HTML][HTML] Exploring the chemical space of ionic liquids for CO2 dissolution through generative machine learning models

X Chen, G Chen, K Xie, J Cheng, J Chen… - Green Chemical …, 2024 - Elsevier
For discovering uncharted chemical space of ionic liquids (ILs) for CO 2 dissolution, a
reliable generative framework combining re-balanced variational autoencoder (VAE) …