28 accepted papers
Cyclic compounds that contain at least one ring play an important role in drug design. Despite the recent success of molecular modeling with graph neural networks (GNNs), few models explicitly take rings in compounds into consideration, consequently limiting the expressiveness of the models. In this…
Recent advancements in biological research leverage the integration of molecules, proteins, and natural language to enhance drug discovery. However, current models exhibit several limitations, such as the generation of invalid molecular SMILES, underutilization of contextual information, and equal t…
De novo molecular generation is an essential task for science discovery. Recently, fragment-based deep generative models have attracted much research attention due to their flexibility in generating novel molecules based on existing molecule fragments. However, the motif vocabulary, i.e., the collec…
Modeling the interaction between proteins and ligands and accurately predicting their binding structures is a critical yet challenging task in drug discovery. Recent advancements in deep learning have shown promise in addressing this challenge, with sampling-based and regression-based methods emergi…
Generative pre-trained Transformer (GPT) has demonstrates its great success in natural language processing and related techniques have been adapted into molecular modeling. Considering that text is the most important record for scientific discovery, in this paper, we propose MolXPT, a unified langua…
Retrosynthesis, which predicts the reactants of a given target molecule, is an essential task for drug discovery. In recent years, the machine learing based retrosynthesis methods have achieved promising results. In this work, we introduce RetroKNN, a local reaction template retrieval method to furt…
Retrosynthesis, which aims to find a route to synthesize a target molecule from commercially available starting materials, is a critical task in drug discovery and materials design. Recently, the combination of ML-based single-step reaction predictors with multi-step planners has led to promising re…
Summarization models often generate text that is poorly calibrated to quality metrics because they are trained to maximize the likelihood of a single reference (MLE). To address this, recent work has added a calibration step, which exposes a model to its own ranked outputs to improve relevance or, i…
In many real-world scenarios, we often deal with streaming data that is sequentially collected over time. Due to the non-stationary nature of the environment, the streaming data distribution may change in unpredictable ways, which is known as the concept drift in the literature. To handle concept dr…
Autoregressive sequence generation, a prevalent task in machine learning and natural language processing, generates every target token conditioned on both a source input and previously generated target tokens. Previous data augmentation methods, which have been shown to be effective for the task, ma…
With sequentially stacked self-attention, (optional) encoder-decoder attention, and feed-forward layers, Transformer achieves big success in natural language processing (NLP), and many variants have been proposed. Currently, almost all these models assume that the \emph{layer order} is fixed and kep…
Recently the concept of teaching has been introduced into machine learning, in which a teacher model is used to guide the training of a student model (which will be used in real tasks) through data selection, loss function design, etc. Learning to reweight, which is a specific kind of teaching that…
Stylized dialogue generation, which aims to generate a given-style response for an input context, plays a vital role in intelligent dialogue systems. Considering there is no parallel data between the contexts and the responses of target style S_1, existing works mainly use back translation to genera…
Sequence learning has attracted much research attention from the machine learning community in recent years. In many applications, a sequence learning task is usually associated with multiple temporally correlated auxiliary tasks, which are different in terms of how much input information to use or…
Transformer architecture achieves great success in abundant natural language processing tasks. The over-parameterization of the Transformer model has motivated plenty of works to alleviate its overfitting for superior performances. With some explorations, we find simple techniques such as dropout, c…
The recently proposed BERT (Devlin et al., 2019) has shown great power on a variety of natural language understanding tasks, such as text classification, reading comprehension, etc. However, how to effectively apply BERT to neural machine translation (NMT) lacks enough exploration. While BERT is mor…
Tokenization is the first step of many natural language processing (NLP) tasks and plays an important role for neural NLP models. Tokenizaton method such as byte-pair encoding (BPE), which can greatly reduce the large vocabulary and deal with out-of-vocabulary words, has shown to be effective and is…
An unsupervised image-to-image translation (UI2I) task deals with learning a mapping between two domains without paired images. While existing UI2I methods usually require numerous unpaired images from different domains for training, there are many scenarios where training data is quite limited. In…
Dual learning has attracted much attention in machine learning, computer vision and natural language processing communities. The core idea of dual learning is to leverage the duality between the primal task (mapping from domain X to domain Y) and dual task (mapping from domain Y to X) to boost the p…
Neural machine translation models usually use the encoder-decoder framework and generate translation from left to right (or right to left) without fully utilizing the target-side global information. A few recent approaches seek to exploit the global information through two-pass decoding, yet have li…
Image-to-image translation tasks have been widely investigated with Generative Adversarial Networks (GANs) and dual learning. However, existing models lack the ability to control the translated results in the target domain and their results usually lack of diversity in the sense that a fixed image u…
Neural Machine Translation (NMT) has achieved remarkable progress with the quick evolvement of model structures. In this paper, we propose the concept of layer-wise coordination for NMT, which explicitly coordinates the learning of hidden representations of the encoder and decoder together layer by…
Teaching is critical to human society: it is with teaching that prospective students are educated and human civilization can be inherited and advanced. A good teacher not only provides his/her students with qualified teaching materials (e.g., textbooks), but also sets up appropriate learning objecti…
Many artificial intelligence tasks appear in dual forms like English$\leftrightarrow$French translation and speech$\leftrightarrow$text transformation. Existing dual learning schemes, which are proposed to solve a pair of such dual tasks, explore how to leverage such dualities from data level. In th…
Neural Machine Translation (NMT) has become a popular technology in recent years, and beam search is its de facto decoding method due to the shrunk search space and reduced computational complexity. However, since it only searches for local optima at each time step through one-step forward looking,…
The encoder-decoder framework has achieved promising progress for many sequence generation tasks, including machine translation, text summarization, dialog system, image captioning, etc. Such a framework adopts an one-pass forward process while decoding and generating a sequence, but lacks the delib…
Many supervised learning tasks are emerged in dual forms, e.g., English-to-French translation vs. French-to-English translation, speech recognition vs. text to speech, and image classification vs. image generation. Two dual tasks have intrinsic connections with each other due to the probabilistic co…
While neural machine translation (NMT) is making good progress in the past two years, tens of millions of bilingual sentence pairs are needed for its training. However, human labeling is very costly. To tackle this training data bottleneck, we develop a dual-learning mechanism, which can enable an N…