Molecular Property Prediction (MPP) is a critical task in computational drug discovery, aimed at identifying molecules with desirable pharmacological and ADMET (absorption, distribution, metabolism, excretion, and toxicity) properties. Machine learning models have been widely used in this fast-growing field, with two types of models being commonly employed: traditional non-deep models and deep models.

However, acquiring large-scale annotated datasets is both a costly and time-consuming endeavor. To address this challenge, dataset expansion technologies aim to automatically augment datasets, unlocking the full potential of deep models. Current data expansion techniques include image transformation and image synthesis methods. Transformation-based methods introduce only local variations, leading to limited diversity. In contrast, synthesis-based methods generate entirely new content, greatly enhancing informativeness. However, existing synthesis methods carry the risk of distribution deviations, potentially degrading model performance with out-of-distribution samples. In this paper, we propose DistDiff, a training-free data expansion framework based on the distribution-aware diffusion model.

Molecular Property Prediction (MPP) is a crucial task in the AI-driven Drug Discovery (AIDD) pipeline, which has recently gained considerable attention thanks to advancements in deep learning. However, recent research has revealed that deep models struggle to beat traditional non-deep ones on MPP.

Detecting test samples drawn sufficiently far away from the training distribution statistically or adversarially is a fundamental requirement for deploying a good classifier in many real-world machine learning applications. However, deep neural networks with the softmax classifier are known to produce highly overconfident posterior distributions even for such abnormal samples. In this paper, we propose a simple yet effective method for detecting any abnormal samples, which is applicable to any pre-trained softmax neural classifier. We obtain the class conditional Gaussian distributions with respect to (low-and upper-level) features of the deep models under Gaussian discriminant analysis, which result in a confidence score based on the Mahalanobis distance. While most prior methods have been evaluated for detecting either out-of-distribution or adversarial samples, but not both, the proposed method achieves the state-of-the-art performances for both cases in our experiments. Moreover, we found that our proposed method is more robust in harsh cases, e.g., when the training dataset has noisy labels or small number of samples. Finally, we show that the proposed method enjoys broader usage by applying it to class-incremental learning: whenever out-of-distribution samples are detected, our classification rule can incorporate new classes well without further training deep models.

Deep learning with noisy labels is practically challenging, as the capacity of deep models is so high that they can totally memorize these noisy labels sooner or later during training. Nonetheless, recent studies on the memorization effects of deep neural networks show that they would first memorize training data of clean labels and then those of noisy labels. Therefore in this paper, we propose a new deep learning paradigm called ''Co-teaching'' for combating with noisy labels. Namely, we train two deep neural networks simultaneously, and let them teach each other given every mini-batch: firstly, each network feeds forward all data and selects some data of possibly clean labels; secondly, two networks communicate with each other what data in this mini-batch should be used for training; finally, each network back propagates the data selected by its peer network and updates itself. Empirical results on noisy versions of MNIST, CIFAR-10 and CIFAR-100 demonstrate that Co-teaching is much superior to the state-of-the-art methods in the robustness of trained deep models.

When we are faced with challenging image classification tasks, we often explain our reasoning by dissecting the image, and pointing out prototypical aspects of one class or another. The mounting evidence for each of the classes helps us make our final decision. In this work, we introduce a deep network architecture -- prototypical part network (ProtoPNet), that reasons in a similar way: the network dissects the image by finding prototypical parts, and combines evidence from the prototypes to make a final classification. The model thus reasons in a way that is qualitatively similar to the way ornithologists, physicians, and others would explain to people on how to solve challenging image classification tasks. The network uses only image-level labels for training without any annotations for parts of images. We demonstrate our method on the CUB-200-2011 dataset and the Stanford Cars dataset. Our experiments show that ProtoPNet can achieve comparable accuracy with its analogous non-interpretable counterpart, and when several ProtoPNets are combined into a larger network, it can achieve an accuracy that is on par with some of the best-performing deep models. Moreover, ProtoPNet provides a level of interpretability that is absent in other interpretable deep models.

Large-scale industrial recommender systems are usually confronted with computational problems due to the enormous corpus size. To retrieve and recommend the most relevant items to users under response time limits, resorting to an efficient index structure is an effective and practical solution. The previous work Tree-based Deep Model (TDM) \cite{zhu2018learning} greatly improves recommendation accuracy using tree index. By indexing items in a tree hierarchy and training a user-node preference prediction model satisfying a max-heap like property in the tree, TDM provides logarithmic computational complexity w.r.t. the corpus size, enabling the use of arbitrary advanced models in candidate retrieval and recommendation.

Recent work has shown that a simple, fast method called Simple Graph Convolution (SGC) (Wu et al., 2019), which eschews deep learning, is competitive with deep methods like graph convolutional networks (GCNs) (Kipf & Welling, 2017) in common graph machine learning benchmarks. The use of graph data in SGC implicitly assumes the common but not universal graph characteristic of homophily, wherein nodes link to nodes which are similar. Here we confirm that SGC is indeed ineffective for heterophilous (i.e., non-homophilous) graphs via experiments on synthetic and real-world datasets. We propose Adaptive Simple Graph Convolution (ASGC), which we show can adapt to both homophilous and heterophilous graph structure. Like SGC, ASGC is not a deep model, and hence is fast, scalable, and interpretable; further, we can prove performance guarantees on natural synthetic data models. Empirically, ASGC is often competitive with recent deep models at node classification on a benchmark of real-world datasets. The SGC paper questioned whether the complexity of graph neural networks is warranted for common graph problems involving homophilous networks; our results similarly suggest that, while deep learning often achieves the highest performance, heterophilous structure alone does not necessitate these more involved methods.

Plastic neural networks have the ability to adapt to new tasks. However, in a continual learning setting, the configuration of parameters learned in previous tasks can severely reduce the adaptability to future tasks. In particular, we show that, when using weight decay, weights in successive layers of a deep network may become mutually frozen. This has a double effect: on the one hand, it makes the network updates more invariant to nuisance factors, providing a useful bias for future tasks. On the other hand, it can prevent the network from learning new tasks that require significantly different features. In this context, we find that the local input sensitivity of a deep model is correlated with its ability to adapt, thus leading to an intriguing trade-off between adaptability and invariance when training a deep model more than once. We then show that a simple intervention that resets the mutually frozen connections can improve transfer learning on a variety of visual classification tasks. The efficacy of resetting itself depends on the size of the target dataset and the difference of the pre-training and target domains, allowing us to achieve state-of-the-art results on some datasets.

We present SELOR, a framework for integrating self-explaining capabilities into a given deep model to achieve both high prediction performance and human precision. By "human precision", we refer to the degree to which humans agree with the reasons models provide for their predictions. Human precision affects user trust and allows users to collaborate closely with the model. We demonstrate that logic rule explanations naturally satisfy them with the expressive power required for good predictive performance. We then illustrate how to enable a deep model to predict and explain with logic rules. Our method does not require predefined logic rule sets or human annotations and can be learned efficiently and easily with widely-used deep learning modules in a differentiable way. Extensive experiments show that our method gives explanations closer to human decision logic than other methods while maintaining the performance of the deep learning model.