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Much scientific enquiry across disciplines is founded upon a mechanistic treatment of dynamic systems that ties form to function. A highly visible instance of this is in molecular biology, where an important goal is to determine…

Biomolecules · Quantitative Biology 2021-06-17 Xiaojie Guo , Yuanqi Du , Sivani Tadepalli , Liang Zhao , Amarda Shehu

Variational Autoencoders (VAEs) provide a theoretically-backed and popular framework for deep generative models. However, learning a VAE from data poses still unanswered theoretical questions and considerable practical challenges. In this…

Machine Learning · Computer Science 2020-06-01 Partha Ghosh , Mehdi S. M. Sajjadi , Antonio Vergari , Michael Black , Bernhard Schölkopf

Constrained generative modeling is fundamental to applications such as robotic control and autonomous driving, where models must respect physical laws and safety-critical constraints. In real-world settings, these constraints rarely take…

Machine Learning · Computer Science 2026-03-10 Xiaoxuan Liang , Saeid Naderiparizi , Yunpeng Liu , Berend Zwartsenberg , Frank Wood

Causal structure learning has been a challenging task in the past decades and several mainstream approaches such as constraint- and score-based methods have been studied with theoretical guarantees. Recently, a new approach has transformed…

Machine Learning · Computer Science 2019-11-19 Ignavier Ng , Shengyu Zhu , Zhitang Chen , Zhuangyan Fang

Graph-based semantic representations are valuable in natural language processing, where it is often simple and effective to represent linguistic concepts as nodes, and relations as edges between them. Several attempts has been made to find…

Formal Languages and Automata Theory · Computer Science 2021-05-10 Johanna Björklund , Frank Drewes , Anna Jonsson

Graph generation is an extremely important task, as graphs are found throughout different areas of science and engineering. In this work, we focus on the modern equivalent of the Erdos-Renyi random graph model: the graph variational…

Machine Learning · Computer Science 2020-02-19 Daniel Flam-Shepherd , Tony Wu , Alan Aspuru-Guzik

Recently, generative adversarial networks have gained a lot of popularity for image generation tasks. However, such models are associated with complex learning mechanisms and demand very large relevant datasets. This work borrows concepts…

Machine Learning · Computer Science 2018-09-28 Shagan Sah , Chi Zhang , Thang Nguyen , Dheeraj Kumar Peri , Ameya Shringi , Raymond Ptucha

Event temporal graphs have been shown as convenient and effective representations of complex temporal relations between events in text. Recent studies, which employ pre-trained language models to auto-regressively generate linearised graphs…

Computation and Language · Computer Science 2024-04-03 Xingwei Tan , Yuxiang Zhou , Gabriele Pergola , Yulan He

In recent years, numerous graph generative models (GGMs) have been proposed. However, evaluating these models remains a considerable challenge, primarily due to the difficulty in extracting meaningful graph features that accurately…

Machine Learning · Computer Science 2025-03-18 Chengen Wang , Murat Kantarcioglu

We present a graph neural network model for solving graph-to-graph learning problems. Most deep learning on graphs considers ``simple'' problems such as graph classification or regressing real-valued graph properties. For such tasks, the…

Machine Learning · Computer Science 2021-06-08 Guan Wang , Francois Bernard Lauze , Aasa Feragen

De novo molecule design has become a highly active research area, advanced significantly through the use of state-of-the-art generative models. Despite these advances, several fundamental questions remain unanswered as the field…

Biomolecules · Quantitative Biology 2024-09-09 Heath Arthur-Loui , Amina Mollaysa , Michael Krauthammer

While a wide range of interpretable generative procedures for graphs exist, matching observed graph topologies with such procedures and choices for its parameters remains an open problem. Devising generative models that closely reproduce…

Machine Learning · Computer Science 2019-11-11 Niklas Stoehr , Emine Yilmaz , Marc Brockschmidt , Jan Stuehmer

Graph neural networks (GNNs) have been used extensively for addressing problems in drug design and discovery. Both ligand and target molecules are represented as graphs with node and edge features encoding information about atomic elements…

Machine Learning · Computer Science 2021-10-14 Dhananjay Bhaskar , Jackson D. Grady , Michael A. Perlmutter , Smita Krishnaswamy

Graphs are important data representations for describing objects and their relationships, which appear in a wide diversity of real-world scenarios. As one of a critical problem in this area, graph generation considers learning the…

Machine Learning · Computer Science 2022-10-06 Xiaojie Guo , Liang Zhao

Generating realistic graph-structured data is challenging due to discrete connectivity, varying graph sizes, and class-specific structural patterns. Recent Generative Adversarial Networks (GAN)-based graph generation methods improve edge…

Machine Learning · Computer Science 2026-05-29 James Sargant , Seyedeh Ava Razi Razavi , Renata Dividino , Sheridan Houghten

Generating images from semantic visual knowledge is a challenging task, that can be useful to condition the synthesis process in complex, subtle, and unambiguous ways, compared to alternatives such as class labels or text descriptions.…

Computer Vision and Pattern Recognition · Computer Science 2022-07-04 Renato Sortino , Simone Palazzo , Concetto Spampinato

Counterfactual explanations promote explainability in machine learning models by answering the question "how should an input instance be perturbed to obtain a desired predicted label?". The comparison of this instance before and after…

Machine Learning · Computer Science 2022-11-09 Jing Ma , Ruocheng Guo , Saumitra Mishra , Aidong Zhang , Jundong Li

To address the lack of public power system data for machine learning research in energy networks, we investigate the use of variational graph autoencoders (VGAEs) for synthetic distribution grid generation. Using two open-source datasets,…

Machine Learning · Computer Science 2025-12-02 Syed Zain Abbas , Ehimare Okoyomon

The ambiguity of the decision-making process has been pointed out as the main obstacle to applying the deep learning-based method in a practical way in spite of its outstanding performance. Interpretability could guarantee the confidence of…

Computer Vision and Pattern Recognition · Computer Science 2019-06-11 Hyebin Lee , Seong Tae Kim , Yong Man Ro

Generic generation and manipulation of text is challenging and has limited success compared to recent deep generative modeling in visual domain. This paper aims at generating plausible natural language sentences, whose attributes are…

Machine Learning · Computer Science 2018-09-14 Zhiting Hu , Zichao Yang , Xiaodan Liang , Ruslan Salakhutdinov , Eric P. Xing