Weakly-supervised Temporal Path Representation Learning with Contrastive Curriculum Learning -- Extended Version

In step with the digitalization of transportation, we are witnessing a growing range of path-based smart-city applications, e.g., travel-time estimation and travel path ranking. A temporal path(TP) that includes temporal information, e.g., departure time, into the path is fundamental to enable such applications. In this setting, it is essential to learn generic temporal path representations(TPRs) that consider spatial and temporal correlations simultaneously and that can be used in different applications, i.e., downstream tasks. Existing methods fail to achieve the goal since (i) supervised methods require large amounts of task-specific labels when training and thus fail to generalize the obtained TPRs to other tasks; (ii) through unsupervised methods can learn generic representations, they disregard the temporal aspect, leading to sub-optimal results. To contend with the limitations of existing solutions, we propose a Weakly-Supervised Contrastive (WSC) learning model. We first propose a temporal path encoder that encodes both the spatial and temporal information of a temporal path into a TPR. To train the encoder, we introduce weak labels that are easy and inexpensive to obtain and are relevant to different tasks, e.g., temporal labels indicating peak vs. off-peak hours from departure times. Based on the weak labels, we construct meaningful positive and negative temporal path samples by considering both spatial and temporal information, which facilities training the encoder using contrastive learning by pulling closer to the positive samples' representations while pushing away the negative samples' representations. To better guide contrastive learning, we propose a learning strategy based on Curriculum Learning such that the learning performs from easy to hard training instances. Experiments studies verify the effectiveness of the proposed method.

A Roadmap for Big Model

With the rapid development of deep learning, training Big Models (BMs) for multiple downstream tasks becomes a popular paradigm. Researchers have achieved various outcomes in the construction of BMs and the BM application in many fields. At present, there is a lack of research work that sorts out the overall progress of BMs and guides the follow-up research. In this paper, we cover not only the BM technologies themselves but also the prerequisites for BM training and applications with BMs, dividing the BM review into four parts: Resource, Models, Key Technologies and Application. We introduce 16 specific BM-related topics in those four parts, they are Data, Knowledge, Computing System, Parallel Training System, Language Model, Vision Model, Multi-modal Model, Theory&Interpretability, Commonsense Reasoning, Reliability&Security, Governance, Evaluation, Machine Translation, Text Generation, Dialogue and Protein Research. In each topic, we summarize clearly the current studies and propose some future research directions. At the end of this paper, we conclude the further development of BMs in a more general view.

RGB-Depth Fusion GAN for Indoor Depth Completion

The raw depth image captured by the indoor depth sensor usually has an extensive range of missing depth values due to inherent limitations such as the inability to perceive transparent objects and limited distance range. The incomplete depth map burdens many downstream vision tasks, and a rising number of depth completion methods have been proposed to alleviate this issue. While most existing methods can generate accurate dense depth maps from sparse and uniformly sampled depth maps, they are not suitable for complementing the large contiguous regions of missing depth values, which is common and critical. In this paper, we design a novel two-branch end-to-end fusion network, which takes a pair of RGB and incomplete depth images as input to predict a dense and completed depth map. The first branch employs an encoder-decoder structure to regress the local dense depth values from the raw depth map, with the help of local guidance information extracted from the RGB image. In the other branch, we propose an RGB-depth fusion GAN to transfer the RGB image to the fine-grained textured depth map. We adopt adaptive fusion modules named W-AdaIN to propagate the features across the two branches, and we append a confidence fusion head to fuse the two outputs of the branches for the final depth map. Extensive experiments on NYU-Depth V2 and SUN RGB-D demonstrate that our proposed method clearly improves the depth completion performance, especially in a more realistic setting of indoor environments with the help of the pseudo depth map.

Protein Representation Learning by Geometric Structure Pretraining

Learning effective protein representations is critical in a variety of tasks in biology such as predicting protein function or structure. Existing approaches usually pretrain protein language models on a large number of unlabeled amino acid sequences and then finetune the models with some labeled data in downstream tasks. Despite the effectiveness of sequence-based approaches, the power of pretraining on smaller numbers of known protein structures has not been explored for protein property prediction, though protein structures are known to be determinants of protein function. We first present a simple yet effective encoder to learn protein geometry features. We pretrain the protein graph encoder by leveraging multiview contrastive learning and different self-prediction tasks. Experimental results on both function prediction and fold classification tasks show that our proposed pretraining methods outperform or are on par with the state-of-the-art sequence-based methods using much less data. All codes and models will be published upon acceptance.

GeoDiff: a Geometric Diffusion Model for Molecular Conformation Generation

Predicting molecular conformations from molecular graphs is a fundamental problem in cheminformatics and drug discovery. Recently, significant progress has been achieved with machine learning approaches, especially with deep generative models. Inspired by the diffusion process in classical non-equilibrium thermodynamics where heated particles will diffuse from original states to a noise distribution, in this paper, we propose a novel generative model named GeoDiff for molecular conformation prediction. GeoDiff treats each atom as a particle and learns to directly reverse the diffusion process (i.e., transforming from a noise distribution to stable conformations) as a Markov chain. Modeling such a generation process is however very challenging as the likelihood of conformations should be roto-translational invariant. We theoretically show that Markov chains evolving with equivariant Markov kernels can induce an invariant distribution by design, and further propose building blocks for the Markov kernels to preserve the desirable equivariance property. The whole framework can be efficiently trained in an end-to-end fashion by optimizing a weighted variational lower bound to the (conditional) likelihood. Experiments on multiple benchmarks show that GeoDiff is superior or comparable to existing state-of-the-art approaches, especially on large molecules.

Subgraph Retrieval Enhanced Model for Multi-hop Knowledge Base Question Answering

Recent works on knowledge base question answering (KBQA) retrieve subgraphs for easier reasoning. A desired subgraph is crucial as a small one may exclude the answer but a large one might introduce more noises. However, the existing retrieval is either heuristic or interwoven with the reasoning, causing reasoning on the partial subgraphs, which increases the reasoning bias when the intermediate supervision is missing. This paper proposes a trainable subgraph retriever (SR) decoupled from the subsequent reasoning process, which enables a plug-and-play framework to enhance any subgraph-oriented KBQA model. Extensive experiments demonstrate SR achieves significantly better retrieval and QA performance than existing retrieval methods. Via weakly supervised pre-training as well as the end-to-end fine-tuning, SRl achieves new state-of-the-art performance when combined with NSM, a subgraph-oriented reasoner, for embedding-based KBQA methods.

Structured Multi-task Learning for Molecular Property Prediction

Multi-task learning for molecular property prediction is becoming increasingly important in drug discovery. However, in contrast to other domains, the performance of multi-task learning in drug discovery is still not satisfying as the number of labeled data for each task is too limited, which calls for additional data to complement the data scarcity. In this paper, we study multi-task learning for molecular property prediction in a novel setting, where a relation graph between tasks is available. We first construct a dataset including around 400 tasks as well as a task relation graph. Then to better utilize such relation graph, we propose a method called SGNN-EBM to systematically investigate the structured task modeling from two perspectives. (1) In the \emph{latent} space, we model the task representations by applying a state graph neural network (SGNN) on the relation graph. (2) In the \emph{output} space, we employ structured prediction with the energy-based model (EBM), which can be efficiently trained through noise-contrastive estimation (NCE) approach. Empirical results justify the effectiveness of SGNN-EBM. Code is available on https://github.com/chao1224/SGNN-EBM.

CADRE: A Cascade Deep Reinforcement Learning Framework for Vision-based Autonomous Urban Driving

Vision-based autonomous urban driving in dense traffic is quite challenging due to the complicated urban environment and the dynamics of the driving behaviors. Widely-applied methods either heavily rely on hand-crafted rules or learn from limited human experience, which makes them hard to generalize to rare but critical scenarios. In this paper, we present a novel CAscade Deep REinforcement learning framework, CADRE, to achieve model-free vision-based autonomous urban driving. In CADRE, to derive representative latent features from raw observations, we first offline train a Co-attention Perception Module (CoPM) that leverages the co-attention mechanism to learn the inter-relationships between the visual and control information from a pre-collected driving dataset. Cascaded by the frozen CoPM, we then present an efficient distributed proximal policy optimization framework to online learn the driving policy under the guidance of particularly designed reward functions. We perform a comprehensive empirical study with the CARLA NoCrash benchmark as well as specific obstacle avoidance scenarios in autonomous urban driving tasks. The experimental results well justify the effectiveness of CADRE and its superiority over the state-of-the-art by a wide margin.

TorchDrug: A Powerful and Flexible Machine Learning Platform for Drug Discovery

Machine learning has huge potential to revolutionize the field of drug discovery and is attracting increasing attention in recent years. However, lacking domain knowledge (e.g., which tasks to work on), standard benchmarks and data preprocessing pipelines are the main obstacles for machine learning researchers to work in this domain. To facilitate the progress of machine learning for drug discovery, we develop TorchDrug, a powerful and flexible machine learning platform for drug discovery built on top of PyTorch. TorchDrug benchmarks a variety of important tasks in drug discovery, including molecular property prediction, pretrained molecular representations, de novo molecular design and optimization, retrosynthsis prediction, and biomedical knowledge graph reasoning. State-of-the-art techniques based on geometric deep learning (or graph machine learning), deep generative models, reinforcement learning and knowledge graph reasoning are implemented for these tasks. TorchDrug features a hierarchical interface that facilitates customization from both novices and experts in this domain. Tutorials, benchmark results and documentation are available at https://torchdrug.ai. Code is released under Apache License 2.0.