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We are now witnessing significant progress of deep learning methods in a variety of tasks (or datasets) of proteins. However, there is a lack of a standard benchmark to evaluate the performance of different methods, which hinders the progress of deep learning in this field. In this paper, we propose such a benchmark called PEER, a comprehensive and multi-task benchmark for Protein sEquence undERstanding. PEER provides a set of diverse protein understanding tasks including protein function prediction, protein localization prediction, protein structure prediction, protein-protein interaction prediction, and protein-ligand interaction prediction. We evaluate different types of sequence-based methods for each task including traditional feature engineering approaches, different sequence encoding methods as well as large-scale pre-trained protein language models. In addition, we also investigate the performance of these methods under the multi-task learning setting. Experimental results show that large-scale pre-trained protein language models achieve the best performance for most individual tasks, and jointly training multiple tasks further boosts the performance. The datasets and source codes of this benchmark are all available at //github.com/DeepGraphLearning/PEER_Benchmark

Automatic emotion recognition (ER) has recently gained lot of interest due to its potential in many real-world applications. In this context, multimodal approaches have been shown to improve performance (over unimodal approaches) by combining diverse and complementary sources of information, providing some robustness to noisy and missing modalities. In this paper, we focus on dimensional ER based on the fusion of facial and vocal modalities extracted from videos, where complementary audio-visual (A-V) relationships are explored to predict an individual's emotional states in valence-arousal space. Most state-of-the-art fusion techniques rely on recurrent networks or conventional attention mechanisms that do not effectively leverage the complementary nature of A-V modalities. To address this problem, we introduce a joint cross-attentional model for A-V fusion that extracts the salient features across A-V modalities, that allows to effectively leverage the inter-modal relationships, while retaining the intra-modal relationships. In particular, it computes the cross-attention weights based on correlation between the joint feature representation and that of the individual modalities. By deploying the joint A-V feature representation into the cross-attention module, it helps to simultaneously leverage both the intra and inter modal relationships, thereby significantly improving the performance of the system over the vanilla cross-attention module. The effectiveness of our proposed approach is validated experimentally on challenging videos from the RECOLA and AffWild2 datasets. Results indicate that our joint cross-attentional A-V fusion model provides a cost-effective solution that can outperform state-of-the-art approaches, even when the modalities are noisy or absent.

Many classical fairy tales, fiction, and screenplays leverage dialogue to advance story plots and establish characters. We present the first study to explore whether machines can understand and generate dialogue in stories, which requires capturing traits of different characters and the relationships between them. To this end, we propose two new tasks including Masked Dialogue Generation and Dialogue Speaker Recognition, i.e., generating missing dialogue turns and predicting speakers for specified dialogue turns, respectively. We build a new dataset DialStory, which consists of 105k Chinese stories with a large amount of dialogue weaved into the plots to support the evaluation. We show the difficulty of the proposed tasks by testing existing models with automatic and manual evaluation on DialStory. Furthermore, we propose to learn explicit character representations to improve performance on these tasks. Extensive experiments and case studies show that our approach can generate more coherent and informative dialogue, and achieve higher speaker recognition accuracy than strong baselines.

Despite the recent progress in deep learning, most approaches still go for a silo-like solution, focusing on learning each task in isolation: training a separate neural network for each individual task. Many real-world problems, however, call for a multi-modal approach and, therefore, for multi-tasking models. Multi-task learning (MTL) aims to leverage useful information across tasks to improve the generalization capability of a model. This thesis is concerned with multi-task learning in the context of computer vision. First, we review existing approaches for MTL. Next, we propose several methods that tackle important aspects of multi-task learning. The proposed methods are evaluated on various benchmarks. The results show several advances in the state-of-the-art of multi-task learning. Finally, we discuss several possibilities for future work.

Hierarchical structures are popular in recent vision transformers, however, they require sophisticated designs and massive datasets to work well. In this paper, we explore the idea of nesting basic local transformers on non-overlapping image blocks and aggregating them in a hierarchical way. We find that the block aggregation function plays a critical role in enabling cross-block non-local information communication. This observation leads us to design a simplified architecture that requires minor code changes upon the original vision transformer. The benefits of the proposed judiciously-selected design are threefold: (1) NesT converges faster and requires much less training data to achieve good generalization on both ImageNet and small datasets like CIFAR; (2) when extending our key ideas to image generation, NesT leads to a strong decoder that is 8$\times$ faster than previous transformer-based generators; and (3) we show that decoupling the feature learning and abstraction processes via this nested hierarchy in our design enables constructing a novel method (named GradCAT) for visually interpreting the learned model. Source code is available //github.com/google-research/nested-transformer.

Transformer, an attention-based encoder-decoder architecture, has revolutionized the field of natural language processing. Inspired by this significant achievement, some pioneering works have recently been done on adapting Transformerliked architectures to Computer Vision (CV) fields, which have demonstrated their effectiveness on various CV tasks. Relying on competitive modeling capability, visual Transformers have achieved impressive performance on multiple benchmarks such as ImageNet, COCO, and ADE20k as compared with modern Convolution Neural Networks (CNN). In this paper, we have provided a comprehensive review of over one hundred different visual Transformers for three fundamental CV tasks (classification, detection, and segmentation), where a taxonomy is proposed to organize these methods according to their motivations, structures, and usage scenarios. Because of the differences in training settings and oriented tasks, we have also evaluated these methods on different configurations for easy and intuitive comparison instead of only various benchmarks. Furthermore, we have revealed a series of essential but unexploited aspects that may empower Transformer to stand out from numerous architectures, e.g., slack high-level semantic embeddings to bridge the gap between visual and sequential Transformers. Finally, three promising future research directions are suggested for further investment.

We propose UniViLM: a Unified Video and Language pre-training Model for multimodal understanding and generation. Motivated by the recent success of BERT based pre-training technique for NLP and image-language tasks, VideoBERT and CBT are proposed to exploit BERT model for video and language pre-training using narrated instructional videos. Different from their works which only pre-train understanding task, we propose a unified video-language pre-training model for both understanding and generation tasks. Our model comprises of 4 components including two single-modal encoders, a cross encoder and a decoder with the Transformer backbone. We first pre-train our model to learn the universal representation for both video and language on a large instructional video dataset. Then we fine-tune the model on two multimodal tasks including understanding task (text-based video retrieval) and generation task (multimodal video captioning). Our extensive experiments show that our method can improve the performance of both understanding and generation tasks and achieves the state-of-the art results.

Reasoning with knowledge expressed in natural language and Knowledge Bases (KBs) is a major challenge for Artificial Intelligence, with applications in machine reading, dialogue, and question answering. General neural architectures that jointly learn representations and transformations of text are very data-inefficient, and it is hard to analyse their reasoning process. These issues are addressed by end-to-end differentiable reasoning systems such as Neural Theorem Provers (NTPs), although they can only be used with small-scale symbolic KBs. In this paper we first propose Greedy NTPs (GNTPs), an extension to NTPs addressing their complexity and scalability limitations, thus making them applicable to real-world datasets. This result is achieved by dynamically constructing the computation graph of NTPs and including only the most promising proof paths during inference, thus obtaining orders of magnitude more efficient models. Then, we propose a novel approach for jointly reasoning over KBs and textual mentions, by embedding logic facts and natural language sentences in a shared embedding space. We show that GNTPs perform on par with NTPs at a fraction of their cost while achieving competitive link prediction results on large datasets, providing explanations for predictions, and inducing interpretable models. Source code, datasets, and supplementary material are available online at //github.com/uclnlp/gntp.

Neural network models usually suffer from the challenge of incorporating commonsense knowledge into the open-domain dialogue systems. In this paper, we propose a novel knowledge-aware dialogue generation model (called TransDG), which transfers question representation and knowledge matching abilities from knowledge base question answering (KBQA) task to facilitate the utterance understanding and factual knowledge selection for dialogue generation. In addition, we propose a response guiding attention and a multi-step decoding strategy to steer our model to focus on relevant features for response generation. Experiments on two benchmark datasets demonstrate that our model has robust superiority over compared methods in generating informative and fluent dialogues. Our code is available at //github.com/siat-nlp/TransDG.

Commonsense knowledge and commonsense reasoning are some of the main bottlenecks in machine intelligence. In the NLP community, many benchmark datasets and tasks have been created to address commonsense reasoning for language understanding. These tasks are designed to assess machines' ability to acquire and learn commonsense knowledge in order to reason and understand natural language text. As these tasks become instrumental and a driving force for commonsense research, this paper aims to provide an overview of existing tasks and benchmarks, knowledge resources, and learning and inference approaches toward commonsense reasoning for natural language understanding. Through this, our goal is to support a better understanding of the state of the art, its limitations, and future challenges.