Emmanuel Bengio

openreview.net

Random Policy Evaluation Uncovers Policies of Generative Flow Networks

Haoran He

Qingpeng Cai 0001

Ling Pan

The Generative Flow Network (GFlowNet) is a probabilistic framework in which an agent learns a stochastic policy and flow functions to sampl… (see more)e objects with probability proportional to an unnormalized reward function. GFlowNets share a strong connection with reinforcement learning (RL) that typically aims to maximize reward. A number of recent works explored connections between GFlowNets and maximum entropy (MaxEnt) RL, which incorporates entropy regularization into the standard RL objective. However, the relationship between GFlowNets and standard RL remains largely unexplored, despite the inherent similarities in their sequential decision-making nature. While GFlowNets can discover diverse solutions through specialized flow-matching objectives, connecting them to standard RL can simplify their implementation through well-established RL principles and also improve RL's capabilities in diverse solution discovery (a critical requirement in many real-world applications), and bridging this gap can further unlock the potential of both fields. In this paper, we bridge this gap by revealing a fundamental connection between GFlowNets and one of the most basic components of RL -- policy evaluation. Surprisingly, we find that the value function obtained from evaluating a uniform policy is closely associated with the flow functions in GFlowNets. Building upon these insights, we introduce a rectified random policy evaluation (RPE) algorithm, which achieves the same reward-matching effect as GFlowNets based on simply evaluating a fixed random policy, offering a new perspective. Empirical results across extensive benchmarks demonstrate that RPE achieves competitive results compared to previous approaches, shedding light on the previously overlooked connection between (non-MaxEnt) RL and GFlowNets.

2024-06-04

ArXiv (preprint)

Random Policy Evaluation Uncovers Policies of Generative Flow Networks

Haoran He

Qingpeng Cai 0001

Ling Pan

2024-06-04

ArXiv (preprint)

Amortizing intractable inference in diffusion models for vision, language, and control

Siddarth Venkatraman

Moksh J. Jain

Luca Scimeca

Minsu Kim

Marcin Sendera

Mohsin Hasan

Luke Rowe

Sarthak Mittal

Pablo Lemos

Alexandre Adam

Jarrid Rector-Brooks

Glen Berseth

Nikolay Malkin

Diffusion models have emerged as effective distribution estimators in vision, language, and reinforcement learning, but their use as priors … (see more)in downstream tasks poses an intractable posterior inference problem. This paper studies amortized sampling of the posterior over data,

2024-05-31

ArXiv (preprint)

Amortizing intractable inference in diffusion models for vision, language, and control

Siddarth Venkatraman

Moksh J. Jain

Luca Scimeca

Minsu Kim

Marcin Sendera

Mohsin Hasan

Luke Rowe

Sarthak Mittal

Pablo Lemos

Alexandre Adam

Jarrid Rector-Brooks

Glen Berseth

Nikolay Malkin

Diffusion models have emerged as effective distribution estimators in vision, language, and reinforcement learning, but their use as priors … (see more)in downstream tasks poses an intractable posterior inference problem. This paper studies amortized sampling of the posterior over data,

2024-05-31

ArXiv (preprint)

Generative Active Learning for the Search of Small-molecule Protein Binders

Maksym Korablyov

Cheng-Hao Liu

Moksh J. Jain

Almer M. van der Sloot

Eric Jolicoeur

Edward Ruediger

Andrei Cristian Nica

Kostiantyn Lapchevskyi

Daniel St-Cyr

Doris Alexandra Schuetz

Victor I Butoi

Jarrid Rector-Brooks

Simon R. Blackburn

Leo Feng

Hadi Nekoei

Sai Krishna Gottipati

Priyesh Vijayan

Prateek Gupta

Ladislav Rampášek … (see 14 more)

Sasikanth Avancha

Pierre-Luc Bacon

William L. Hamilton

Brooks Paige

Sanchit Misra

Stanisław Jastrzębski

Bharat Kaul

Doina Precup

José Miguel Hernández-Lobato

Marwin Segler

Michael M. Bronstein

Anne Marinier

Mike Tyers

Despite substantial progress in machine learning for scientific discovery in recent years, truly de novo design of small molecules which exh… (see more)ibit a property of interest remains a significant challenge. We introduce LambdaZero, a generative active learning approach to search for synthesizable molecules. Powered by deep reinforcement learning, LambdaZero learns to search over the vast space of molecules to discover candidates with a desired property. We apply LambdaZero with molecular docking to design novel small molecules that inhibit the enzyme soluble Epoxide Hydrolase 2 (sEH), while enforcing constraints on synthesizability and drug-likeliness. LambdaZero provides an exponential speedup in terms of the number of calls to the expensive molecular docking oracle, and LambdaZero de novo designed molecules reach docking scores that would otherwise require the virtual screening of a hundred billion molecules. Importantly, LambdaZero discovers novel scaffolds of synthesizable, drug-like inhibitors for sEH. In in vitro experimental validation, a series of ligands from a generated quinazoline-based scaffold were synthesized, and the lead inhibitor N-(4,6-di(pyrrolidin-1-yl)quinazolin-2-yl)-N-methylbenzamide (UM0152893) displayed sub-micromolar enzyme inhibition of sEH.

2024-05-02

ArXiv (preprint)

SynFlowNet: Design of Diverse and Novel Molecules with Synthesis Constraints

M. Cretu

Charles Harris

Ilia Igashov

Arne Schneuing

Marwin Segler

Bruno Correia

Julien Roy

Pietro Lio

Generative models see increasing use in computer-aided drug design. However, while performing well at capturing distributions of molecular m… (see more)otifs, they often produce synthetically inaccessible molecules. To address this, we introduce SynFlowNet, a GFlowNet model whose action space uses chemical reactions and buyable reactants to sequentially build new molecules. By incorporating forward synthesis as an explicit constraint of the generative mechanism, we aim at bridging the gap between in silico molecular generation and real world synthesis capabilities. We evaluate our approach using synthetic accessibility scores and an independent retrosynthesis tool to assess the synthesizability of our compounds, and motivate the choice of GFlowNets through considerable improvement in sample diversity compared to baselines. Additionally, we identify challenges with reaction encodings that can complicate traversal of the MDP in the backward direction. To address this, we introduce various strategies for learning the GFlowNet backward policy and thus demonstrate how additional constraints can be integrated into the GFlowNet MDP framework. This approach enables our model to successfully identify synthesis pathways for previously unseen molecules.

2024-05-02

ArXiv (preprint)

Learning to Scale Logits for Temperature-Conditional GFlowNets

Minsu Kim

Joohwan Ko

Dinghuai Zhang

Ling Pan

Taeyoung Yun

Woo Chang Kim

Jinkyoo Park

GFlowNets are probabilistic models that sequentially generate compositional structures through a stochastic policy. Among GFlowNets, tempera… (see more)ture-conditional GFlowNets can introduce temperature-based controllability for exploration and exploitation. We propose \textit{Logit-scaling GFlowNets} (Logit-GFN), a novel architectural design that greatly accelerates the training of temperature-conditional GFlowNets. It is based on the idea that previously proposed approaches introduced numerical challenges in the deep network training, since different temperatures may give rise to very different gradient profiles as well as magnitudes of the policy's logits. We find that the challenge is greatly reduced if a learned function of the temperature is used to scale the policy's logits directly. Also, using Logit-GFN, GFlowNets can be improved by having better generalization capabilities in offline learning and mode discovery capabilities in online learning, which is empirically verified in various biological and chemical tasks. Our code is available at https://github.com/dbsxodud-11/logit-gfn

2024-05-01

ICML.cc/2024/Conference (poster)

openreview.net

Investigating Generalization Behaviours of Generative Flow Networks

Lazar Atanackovic

Generative Flow Networks (GFlowNets, GFNs) are a generative framework for learning unnormalized probability mass functions over discrete spa… (see more)ces. Since their inception, GFlowNets have proven to be useful for learning generative models in applications where the majority of the discrete space is unvisited during training. This has inspired some to hypothesize that GFlowNets, when paired with deep neural networks (DNNs), have favourable generalization properties. In this work, we empirically verify some of the hypothesized mechanisms of generalization of GFlowNets. In particular, we find that the functions that GFlowNets learn to approximate have an implicit underlying structure which facilitate generalization. We also find that GFlowNets are sensitive to being trained offline and off-policy; however, the reward implicitly learned by GFlowNets is robust to changes in the training distribution.

2024-02-01

arXiv (published)

Local Search GFlowNets

Minsu Kim

Taeyoung Yun

Dinghuai Zhang