Xianggen Liu

Xianggen Liu, Zhengdong Lu, Lili Mou

Deep learning has largely improved the performance of various natural language processing (NLP) tasks. However, most deep learning models are black-box machinery, and lack explicit interpretation. In this chapter, we will introduce our recent progress on neuro-symbolic approaches to NLP, which combines different schools of AI, namely, symbolism and connectionism. Generally, we will design a neural system with symbolic latent structures for an NLP task, and apply reinforcement learning or its relaxation to perform weakly supervised reasoning in the downstream task. Our framework has been successfully applied to various tasks, including table query reasoning, syntactic structure reasoning, information extraction reasoning, and rule reasoning. For each application, we will introduce the background, our approach, and experimental results.

Lilin Zhang, Yimo Guo, Yue Li et al.

Deep neural networks are highly vulnerable to adversarial examples, i.e.,small perturbations that can significantly degrade model performance. While adversarial training has become the primary defense strategy, most studies focus on balanced datasets, overlooking the challenges posed by real-world long-tail data. Motivated by the fact that perturbations in adversarial examples inherently alter the training distribution, we theoretically investigate their impact. We first revisit adversarial training for long-tail data and identify two key limitations: (i) a skewed training objective caused by class imbalance, and (ii) unstable evolution of adversarial distributions. Furthermore, we show that perturbations can simultaneously address both adversarial vulnerability and class imbalance. Based on these insights, we propose RobustLT, a plug-and-play framework that adaptively adjusts perturbations during adversarial training. Extensive experiments demonstrate that RobustLT consistently enhances adversarial robustness and class-balance on long-tailed datasets. The code is available at \href{https://github.com/zhang-lilin/RobustLT}{https://github.com/zhang-lilin/RobustLT}.

Site Mo, Haoxin Wang, Bixiong Li et al.

Time series is a special type of sequence data, a sequence of real-valued random variables collected at even intervals of time. The real-world multivariate time series comes with noises and contains complicated local and global temporal dynamics, making it difficult to forecast the future time series given the historical observations. This work proposes a simple and effective framework, coined as TimeSQL, which leverages multi-scale patching and smooth quadratic loss (SQL) to tackle the above challenges. The multi-scale patching transforms the time series into two-dimensional patches with different length scales, facilitating the perception of both locality and long-term correlations in time series. SQL is derived from the rational quadratic kernel and can dynamically adjust the gradients to avoid overfitting to the noises and outliers. Theoretical analysis demonstrates that, under mild conditions, the effect of the noises on the model with SQL is always smaller than that with MSE. Based on the two modules, TimeSQL achieves new state-of-the-art performance on the eight real-world benchmark datasets. Further ablation studies indicate that the key modules in TimeSQL could also enhance the results of other models for multivariate time series forecasting, standing as plug-and-play techniques.

Haotian Luo, Yixin Liu, Peidong Liu et al.

Deep generative modeling of natural languages has achieved many successes, such as producing fluent sentences and translating from one language into another. However, the development of generative modeling techniques for paraphrase generation still lags behind largely due to the challenges in addressing the complex conflicts between expression diversity and semantic preservation. This paper proposes to generate diverse and high-quality paraphrases by exploiting the pre-trained models with instance-dependent prompts. To learn generalizable prompts, we assume that the number of abstract transforming patterns of paraphrase generation (governed by prompts) is finite and usually not large. Therefore, we present vector-quantized prompts as the cues to control the generation of pre-trained models. Extensive experiments demonstrate that the proposed method achieves new state-of-art results on three benchmark datasets, including Quora, Wikianswers, and MSCOCO. We will release all the code upon acceptance.

Wanlin Cai, Yuxuan Liang, Xianggen Liu et al.

Multivariate time series forecasting poses an ongoing challenge across various disciplines. Time series data often exhibit diverse intra-series and inter-series correlations, contributing to intricate and interwoven dependencies that have been the focus of numerous studies. Nevertheless, a significant research gap remains in comprehending the varying inter-series correlations across different time scales among multiple time series, an area that has received limited attention in the literature. To bridge this gap, this paper introduces MSGNet, an advanced deep learning model designed to capture the varying inter-series correlations across multiple time scales using frequency domain analysis and adaptive graph convolution. By leveraging frequency domain analysis, MSGNet effectively extracts salient periodic patterns and decomposes the time series into distinct time scales. The model incorporates a self-attention mechanism to capture intra-series dependencies, while introducing an adaptive mixhop graph convolution layer to autonomously learn diverse inter-series correlations within each time scale. Extensive experiments are conducted on several real-world datasets to showcase the effectiveness of MSGNet. Furthermore, MSGNet possesses the ability to automatically learn explainable multi-scale inter-series correlations, exhibiting strong generalization capabilities even when applied to out-of-distribution samples.

Wenhao Zheng, Chenwei Sun, Wenbo Zhang et al.

Deep generative models, such as diffusion models, have shown promising progress in image generation and audio generation via simplified continuity assumptions. However, the development of generative modeling techniques for generating multi-modal data, such as parametric CAD sequences, still lags behind due to the challenges in addressing long-range constraints and parameter sensitivity. In this work, we propose a novel framework for quantitatively constrained CAD generation, termed Target-Guided Bayesian Flow Network (TGBFN). For the first time, TGBFN handles the multi-modality of CAD sequences (i.e., discrete commands and continuous parameters) in a unified continuous and differentiable parameter space rather than in the discrete data space. In addition, TGBFN penetrates the parameter update kernel and introduces a guided Bayesian flow to control the CAD properties. To evaluate TGBFN, we construct a new dataset for quantitatively constrained CAD generation. Extensive comparisons across single-condition and multi-condition constrained generation tasks demonstrate that TGBFN achieves state-of-the-art performance in generating high-fidelity, condition-aware CAD sequences. The code is available at https://github.com/scu-zwh/TGBFN.

Peidong Liu, Wenbo Zhang, Xue Zhe et al.

The efficacy of diffusion models in generating a spectrum of data modalities, including images, text, and videos, has spurred inquiries into their utility in molecular generation, yielding significant advancements in the field. However, the molecular generation process with diffusion models involves multiple autoregressive steps over a finite time horizon, leading to exposure bias issues inherently. To address the exposure bias issue, we propose a training framework named GapDiff. The core idea of GapDiff is to utilize model-predicted conformations as ground truth probabilistically during training, aiming to mitigate the data distributional disparity between training and inference, thereby enhancing the affinity of generated molecules. We conduct experiments using a 3D molecular generation model on the CrossDocked2020 dataset, and the vina energy and diversity demonstrate the potency of our framework with superior affinity. GapDiff is available at \url{https://github.com/HUGHNew/gapdiff}.

Xianggen Liu, Yan Guo, Haoran Li et al.

Large Language Models (LLMs) have made great strides in areas such as language processing and computer vision. Despite the emergence of diverse techniques to improve few-shot learning capacity, current LLMs fall short in handling the languages in biology and chemistry. For example, they are struggling to capture the relationship between molecule structure and pharmacochemical properties. Consequently, the few-shot learning capacity of small-molecule drug modification remains impeded. In this work, we introduced DrugLLM, a LLM tailored for drug design. During the training process, we employed Group-based Molecular Representation (GMR) to represent molecules, arranging them in sequences that reflect modifications aimed at enhancing specific molecular properties. DrugLLM learns how to modify molecules in drug discovery by predicting the next molecule based on past modifications. Extensive computational experiments demonstrate that DrugLLM can generate new molecules with expected properties based on limited examples, presenting a powerful few-shot molecule generation capacity.

Caiyang Yu, Xianggen Liu, Yifan Wang et al.

Neural Architecture Search (NAS) has emerged as one of the effective methods to design the optimal neural network architecture automatically. Although neural architectures have achieved human-level performances in several tasks, few of them are obtained from the NAS method. The main reason is the huge search space of neural architectures, making NAS algorithms inefficient. This work presents a novel architecture search algorithm, called GPT-NAS, that optimizes neural architectures by Generative Pre-Trained (GPT) model with an evolutionary algorithm (EA) as the search strategy. In GPT-NAS, we assume that a generative model pre-trained on a large-scale corpus could learn the fundamental law of building neural architectures. Therefore, GPT-NAS leverages the GPT model to propose reasonable architecture components given the basic one and then utilizes EAs to search for the optimal solution. Such an approach can largely reduce the search space by introducing prior knowledge in the search process. Extensive experimental results show that our GPT-NAS method significantly outperforms seven manually designed neural architectures and thirteen architectures provided by competing NAS methods. In addition, our experiments also indicate that the proposed algorithm improves the performance of finely tuned neural architectures by up to about 12% compared to those without GPT, further demonstrating its effectiveness in searching neural architectures.

Pengyong Li, Jun Wang, Ziliang Li et al.

Self-supervised learning has gradually emerged as a powerful technique for graph representation learning. However, transferable, generalizable, and robust representation learning on graph data still remains a challenge for pre-training graph neural networks. In this paper, we propose a simple and effective self-supervised pre-training strategy, named Pairwise Half-graph Discrimination (PHD), that explicitly pre-trains a graph neural network at graph-level. PHD is designed as a simple binary classification task to discriminate whether two half-graphs come from the same source. Experiments demonstrate that the PHD is an effective pre-training strategy that offers comparable or superior performance on 13 graph classification tasks compared with state-of-the-art strategies, and achieves notable improvements when combined with node-level strategies. Moreover, the visualization of learned representation revealed that PHD strategy indeed empowers the model to learn graph-level knowledge like the molecular scaffold. These results have established PHD as a powerful and effective self-supervised learning strategy in graph-level representation learning.

Xianggen Liu, Pengyong Li, Fandong Meng et al.

Optimization of discrete structures aims at generating a new structure with the better property given an existing one, which is a fundamental problem in machine learning. Different from the continuous optimization, the realistic applications of discrete optimization (e.g., text generation) are very challenging due to the complex and long-range constraints, including both syntax and semantics, in discrete structures. In this work, we present SAGS, a novel Simulated Annealing framework for Graph and Sequence optimization. The key idea is to integrate powerful neural networks into metaheuristics (e.g., simulated annealing, SA) to restrict the search space in discrete optimization. We start by defining a sophisticated objective function, involving the property of interest and pre-defined constraints (e.g., grammar validity). SAGS searches from the discrete space towards this objective by performing a sequence of local edits, where deep generative neural networks propose the editing content and thus can control the quality of editing. We evaluate SAGS on paraphrase generation and molecule generation for sequence optimization and graph optimization, respectively. Extensive results show that our approach achieves state-of-the-art performance compared with existing paraphrase generation methods in terms of both automatic and human evaluations. Further, SAGS also significantly outperforms all the previous methods in molecule generation.

Xinke Shen, Xianggen Liu, Xin Hu et al.

EEG signals have been reported to be informative and reliable for emotion recognition in recent years. However, the inter-subject variability of emotion-related EEG signals still poses a great challenge for the practical applications of EEG-based emotion recognition. Inspired by recent neuroscience studies on inter-subject correlation, we proposed a Contrastive Learning method for Inter-Subject Alignment (CLISA) to tackle the cross-subject emotion recognition problem. Contrastive learning was employed to minimize the inter-subject differences by maximizing the similarity in EEG signal representations across subjects when they received the same emotional stimuli in contrast to different ones. Specifically, a convolutional neural network was applied to learn inter-subject aligned spatiotemporal representations from EEG time series in contrastive learning. The aligned representations were subsequently used to extract differential entropy features for emotion classification. CLISA achieved state-of-the-art cross-subject emotion recognition performance on our THU-EP dataset with 80 subjects and the publicly available SEED dataset with 15 subjects. It could generalize to unseen subjects or unseen emotional stimuli in testing. Furthermore, the spatiotemporal representations learned by CLISA could provide insights into the neural mechanisms of human emotion processing.

Xianggen Liu, Yunan Luo, Sen Song et al.

Modeling the effects of mutations on the binding affinity plays a crucial role in protein engineering and drug design. In this study, we develop a novel deep learning based framework, named GraphPPI, to predict the binding affinity changes upon mutations based on the features provided by a graph neural network (GNN). In particular, GraphPPI first employs a well-designed pre-training scheme to enforce the GNN to capture the features that are predictive of the effects of mutations on binding affinity in an unsupervised manner and then integrates these graphical features with gradient-boosting trees to perform the prediction. Experiments showed that, without any annotated signals, GraphPPI can capture meaningful patterns of the protein structures. Also, GraphPPI achieved new state-of-the-art performance in predicting the binding affinity changes upon both single- and multi-point mutations on five benchmark datasets. In-depth analyses also showed GraphPPI can accurately estimate the effects of mutations on the binding affinity between SARS-CoV-2 and its neutralizing antibodies. These results have established GraphPPI as a powerful and useful computational tool in the studies of protein design.

Xianggen Liu, Lili Mou, Fandong Meng et al.

Unsupervised paraphrase generation is a promising and important research topic in natural language processing. We propose UPSA, a novel approach that accomplishes Unsupervised Paraphrasing by Simulated Annealing. We model paraphrase generation as an optimization problem and propose a sophisticated objective function, involving semantic similarity, expression diversity, and language fluency of paraphrases. Then, UPSA searches the sentence space towards this objective by performing a sequence of local editing. Our method is unsupervised and does not require parallel corpora for training, so it could be easily applied to different domains. We evaluate our approach on a variety of benchmark datasets, namely, Quora, Wikianswers, MSCOCO, and Twitter. Extensive results show that UPSA achieves the state-of-the-art performance compared with previous unsupervised methods in terms of both automatic and human evaluations. Further, our approach outperforms most existing domain-adapted supervised models, showing the generalizability of UPSA.

Huasong Zhong, Xianggen Liu, Yihui He et al.

We propose a collection of three shift-based primitives for building efficient compact CNN-based networks. These three primitives (channel shift, address shift, shortcut shift) can reduce the inference time on GPU while maintains the prediction accuracy. These shift-based primitives only moves the pointer but avoids memory copy, thus very fast. For example, the channel shift operation is 12.7x faster compared to channel shuffle in ShuffleNet but achieves the same accuracy. The address shift and channel shift can be merged into the point-wise group convolution and invokes only a single kernel call, taking little time to perform spatial convolution and channel shift. Shortcut shift requires no time to realize residual connection through allocating space in advance. We blend these shift-based primitives with point-wise group convolution and built two inference-efficient CNN architectures named AddressNet and Enhanced AddressNet. Experiments on CIFAR100 and ImageNet datasets show that our models are faster and achieve comparable or better accuracy.

Xianggen Liu, Lili Mou, Haotian Cui et al.

In early years, text classification is typically accomplished by feature-based machine learning models; recently, deep neural networks, as a powerful learning machine, make it possible to work with raw input as the text stands. However, exiting end-to-end neural networks lack explicit interpretation of the prediction. In this paper, we propose a novel framework, JUMPER, inspired by the cognitive process of text reading, that models text classification as a sequential decision process. Basically, JUMPER is a neural system that scans a piece of text sequentially and makes classification decisions at the time it wishes. Both the classification result and when to make the classification are part of the decision process, which is controlled by a policy network and trained with reinforcement learning. Experimental results show that a properly trained JUMPER has the following properties: (1) It can make decisions whenever the evidence is enough, therefore reducing total text reading by 30-40% and often finding the key rationale of prediction. (2) It achieves classification accuracy better than or comparable to state-of-the-art models in several benchmark and industrial datasets.

Haotian Cui, Xianggen Liu, Yanhao Huang

The project intends to model the stability of power system with a deep learning algorithm to the problem, aiming to delay the removal of the fault. The so-called "fail-delay cut-off" refers to the occurrence of N-1 backup protection action on the backbone network of the system, resulting in longer time for the removal of the fault. In practice, through the analysis and calculation of a large number of online data, we have found that the N-1 failure system of the main protection action will not be unstable, which is also a guarantee of the operation mode arrangement. In the case of the N-1 backup protection action, there is an approximately 2.5% probability that the system will be destabilized. Therefore, research is needed to improve the operating arrangement.

Zhengdong Lu, Xianggen Liu, Haotian Cui et al.

We propose Object-oriented Neural Programming (OONP), a framework for semantically parsing documents in specific domains. Basically, OONP reads a document and parses it into a predesigned object-oriented data structure (referred to as ontology in this paper) that reflects the domain-specific semantics of the document. An OONP parser models semantic parsing as a decision process: a neural net-based Reader sequentially goes through the document, and during the process it builds and updates an intermediate ontology to summarize its partial understanding of the text it covers. OONP supports a rich family of operations (both symbolic and differentiable) for composing the ontology, and a big variety of forms (both symbolic and differentiable) for representing the state and the document. An OONP parser can be trained with supervision of different forms and strength, including supervised learning (SL) , reinforcement learning (RL) and hybrid of the two. Our experiments on both synthetic and real-world document parsing tasks have shown that OONP can learn to handle fairly complicated ontology with training data of modest sizes.