Rectified Flow For Structure Based Drug Design

Deep generative models have achieved tremendous success in structure-based drug design in recent years, especially for generating 3D ligand molecules that bind to specific protein pocket. Notably, diffusion models have transformed ligand generation by providing exceptional quality and creativity. However, traditional diffusion models are restricted by their conventional learning objectives, which limit their broader applicability. In this work, we propose a new framework FlowSBDD, which is based on rectified flow model, allows us to flexibly incorporate additional loss to optimize specific target and introduce additional condition either as an extra input condition or replacing the initial Gaussian distribution. Extensive experiments on CrossDocked2020 show that our approach could achieve state-of-the-art performance on generating high-affinity molecules while maintaining proper molecular properties without specifically designing binding site, with up to -8.50 Avg. Vina Dock score and 75.0% Diversity.

Switchable Decision: Dynamic Neural Generation Networks

Auto-regressive generation models achieve competitive performance across many different NLP tasks such as summarization, question answering, and classifications. However, they are also known for being slow in inference, which makes them challenging to deploy in real-time applications. We propose a switchable decision to accelerate inference by dynamically assigning computation resources for each data instance. Automatically making decisions on where to skip and how to balance quality and computation cost with constrained optimization, our dynamic neural generation networks enforce the efficient inference path and determine the optimized trade-off. Experiments across question answering, summarization, and classification benchmarks show that our method benefits from less computation cost during inference while keeping the same accuracy. Extensive experiments and ablation studies demonstrate that our method can be general, effective, and beneficial for many NLP tasks.

Language Rectified Flow: Advancing Diffusion Language Generation with Probabilistic Flows

Recent works have demonstrated success in controlling sentence attributes ($e.g.$, sentiment) and structure ($e.g.$, syntactic structure) based on the diffusion language model. A key component that drives theimpressive performance for generating high-quality samples from noise is iteratively denoise for thousands of steps. While beneficial, the complexity of starting from the noise and the learning steps has limited its implementation to many NLP real-world applications. This paper proposes Language Rectified Flow ({\ours}). Our method is based on the reformulation of the standard probabilistic flow models. Language rectified flow learns (neural) ordinary differential equation models to transport between the source distribution and the target distribution, hence providing a unified and effective solution to generative modeling and domain transfer. From the source distribution, our language rectified flow yields fast simulation and effectively decreases the inference time. Experiments on three challenging fine-grained control tasks and multiple high-quality text editing show that our method consistently outperforms its baselines. Extensive experiments and ablation studies demonstrate that our method can be general, effective, and beneficial for many NLP tasks.

AutoML-GPT: Automatic Machine Learning with GPT

AI tasks encompass a wide range of domains and fields. While numerous AI models have been designed for specific tasks and applications, they often require considerable human efforts in finding the right model architecture, optimization algorithm, and hyperparameters. Recent advances in large language models (LLMs) like ChatGPT show remarkable capabilities in various aspects of reasoning, comprehension, and interaction. Consequently, we propose developing task-oriented prompts and automatically utilizing LLMs to automate the training pipeline. To implement this concept, we present the AutoML-GPT, which employs GPT as the bridge to diverse AI models and dynamically trains models with optimized hyperparameters. AutoML-GPT dynamically takes user requests from the model and data cards and composes the corresponding prompt paragraph. Ultimately, with this prompt paragraph, AutoML-GPT will automatically conduct the experiments from data processing to model architecture, hyperparameter tuning, and predicted training log. By leveraging {\ours}'s robust language capabilities and the available AI models, AutoML-GPT can tackle numerous intricate AI tasks across various tasks and datasets. This approach achieves remarkable results in computer vision, natural language processing, and other challenging areas. Extensive experiments and ablation studies demonstrate that our method can be general, effective, and beneficial for many AI tasks.

Fast Point Cloud Generation with Straight Flows

Diffusion models have emerged as a powerful tool for point cloud generation. A key component that drives the impressive performance for generating high-quality samples from noise is iteratively denoise for thousands of steps. While beneficial, the complexity of learning steps has limited its applications to many 3D real-world. To address this limitation, we propose Point Straight Flow (PSF), a model that exhibits impressive performance using one step. Our idea is based on the reformulation of the standard diffusion model, which optimizes the curvy learning trajectory into a straight path. Further, we develop a distillation strategy to shorten the straight path into one step without a performance loss, enabling applications to 3D real-world with latency constraints. We perform evaluations on multiple 3D tasks and find that our PSF performs comparably to the standard diffusion model, outperforming other efficient 3D point cloud generation methods. On real-world applications such as point cloud completion and training-free text-guided generation in a low-latency setup, PSF performs favorably.

Passage-Mask: A Learnable Regularization Strategy for Retriever-Reader Models

Retriever-reader models achieve competitive performance across many different NLP tasks such as open question answering and dialogue conversations. In this work, we notice these models easily overfit the top-rank retrieval passages and standard training fails to reason over the entire retrieval passages. We introduce a learnable passage mask mechanism which desensitizes the impact from the top-rank retrieval passages and prevents the model from overfitting. Controlling the gradient variance with fewer mask candidates and selecting the mask candidates with one-shot bi-level optimization, our learnable regularization strategy enforces the answer generation to focus on the entire retrieval passages. Experiments on different tasks across open question answering, dialogue conversation, and fact verification show that our method consistently outperforms its baselines. Extensive experiments and ablation studies demonstrate that our method can be general, effective, and beneficial for many NLP tasks.

Flow Straight and Fast: Learning to Generate and Transfer Data with Rectified Flow

We present rectified flow, a surprisingly simple approach to learning (neural) ordinary differential equation (ODE) models to transport between two empirically observed distributions \pi_0 and \pi_1, hence providing a unified solution to generative modeling and domain transfer, among various other tasks involving distribution transport. The idea of rectified flow is to learn the ODE to follow the straight paths connecting the points drawn from \pi_0 and \pi_1 as much as possible. This is achieved by solving a straightforward nonlinear least squares optimization problem, which can be easily scaled to large models without introducing extra parameters beyond standard supervised learning. The straight paths are special and preferred because they are the shortest paths between two points, and can be simulated exactly without time discretization and hence yield computationally efficient models. We show that the procedure of learning a rectified flow from data, called rectification, turns an arbitrary coupling of \pi_0 and \pi_1 to a new deterministic coupling with provably non-increasing convex transport costs. In addition, recursively applying rectification allows us to obtain a sequence of flows with increasingly straight paths, which can be simulated accurately with coarse time discretization in the inference phase. In empirical studies, we show that rectified flow performs superbly on image generation, image-to-image translation, and domain adaptation. In particular, on image generation and translation, our method yields nearly straight flows that give high quality results even with a single Euler discretization step.

Diffusion-based Molecule Generation with Informative Prior Bridges

AI-based molecule generation provides a promising approach to a large area of biomedical sciences and engineering, such as antibody design, hydrolase engineering, or vaccine development. Because the molecules are governed by physical laws, a key challenge is to incorporate prior information into the training procedure to generate high-quality and realistic molecules. We propose a simple and novel approach to steer the training of diffusion-based generative models with physical and statistics prior information. This is achieved by constructing physically informed diffusion bridges, stochastic processes that guarantee to yield a given observation at the fixed terminal time. We develop a Lyapunov function based method to construct and determine bridges, and propose a number of proposals of informative prior bridges for both high-quality molecule generation and uniformity-promoted 3D point cloud generation. With comprehensive experiments, we show that our method provides a powerful approach to the 3D generation task, yielding molecule structures with better quality and stability scores and more uniformly distributed point clouds of high qualities.

ALLSH: Active Learning Guided by Local Sensitivity and Hardness

Active learning, which effectively collects informative unlabeled data for annotation, reduces the demand for labeled data. In this work, we propose to retrieve unlabeled samples with a local sensitivity and hardness-aware acquisition function. The proposed method generates data copies through local perturbations and selects data points whose predictive likelihoods diverge the most from their copies. We further empower our acquisition function by injecting the select-worst case perturbation. Our method achieves consistent gains over the commonly used active learning strategies in various classification tasks. Furthermore, we observe consistent improvements over the baselines on the study of prompt selection in prompt-based few-shot learning. These experiments demonstrate that our acquisition guided by local sensitivity and hardness can be effective and beneficial for many NLP tasks.

How to Fill the Optimum Set? Population Gradient Descent with Harmless Diversity

Although traditional optimization methods focus on finding a single optimal solution, most objective functions in modern machine learning problems, especially those in deep learning, often have multiple or infinite numbers of optima. Therefore, it is useful to consider the problem of finding a set of diverse points in the optimum set of an objective function. In this work, we frame this problem as a bi-level optimization problem of maximizing a diversity score inside the optimum set of the main loss function, and solve it with a simple population gradient descent framework that iteratively updates the points to maximize the diversity score in a fashion that does not hurt the optimization of the main loss. We demonstrate that our method can efficiently generate diverse solutions on a variety of applications, including text-to-image generation, text-to-mesh generation, molecular conformation generation and ensemble neural network training.