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Register a new userAdversarial Contrastive Pre-training for Protein Sequences
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Matthew McDermott
Publication date
2021
fields
Informatics Engineering
and research's language is
English
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Recent developments in Natural Language Processing (NLP) demonstrate that large-scale, self-supervised pre-training can be extremely beneficial for downstream tasks. These ideas have been adapted to other domains, including the analysis of the amino acid sequences of proteins. However, to date most attempts on protein sequences rely on direct masked language model style pre-training. In this work, we design a new, adversarial pre-training method for proteins, extending and specializing similar advances in NLP. We show compelling results in comparison to traditional MLM pre-training, though further development is needed to ensure the gains are worth the significant computational cost.
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Code representation learning, which aims to encode the semantics of source code into distributed vectors, plays an important role in recent deep-learning-based models for code intelligence. Recently, many pre-trained language models for source code (e.g., CuBERT and CodeBERT) have been proposed to model the context of code and serve as a basis for downstream code intelligence tasks such as code search, code clone detection, and program translation. Current approaches typically consider the source code as a plain sequence of tokens, or inject the structure information (e.g., AST and data-flow) into the sequential model pre-training. To further explore the properties of programming languages, this paper proposes SynCoBERT, a syntax-guided multi-modal contrastive pre-training approach for better code representations. Specially, we design two novel pre-training objectives originating from the symbolic and syntactic properties of source code, i.e., Identifier Prediction (IP) and AST Edge Prediction (TEP), which are designed to predict identifiers, and edges between two nodes of AST, respectively. Meanwhile, to exploit the complementary information in semantically equivalent modalities (i.e., code, comment, AST) of the code, we propose a multi-modal contrastive learning strategy to maximize the mutual information among different modalities. Extensive experiments on four downstream tasks related to code intelligence show that SynCoBERT advances the state-of-the-art with the same pre-training corpus and model size.
Event extraction (EE) has considerably benefited from pre-trained language models (PLMs) by fine-tuning. However, existing pre-training methods have not involved modeling event characteristics, resulting in the developed EE models cannot take full advantage of large-scale unsupervised data. To this end, we propose CLEVE, a contrastive pre-training framework for EE to better learn event knowledge from large unsupervised data and their semantic structures (e.g. AMR) obtained with automatic parsers. CLEVE contains a text encoder to learn event semantics and a graph encoder to learn event structures respectively. Specifically, the text encoder learns event semantic representations by self-supervised contrastive learning to represent the words of the same events closer than those unrelated words; the graph encoder learns event structure representations by graph contrastive pre-training on parsed event-related semantic structures. The two complementary representations then work together to improve both the conventional supervised EE and the unsupervised liberal EE, which requires jointly extracting events and discovering event schemata without any annotated data. Experiments on ACE 2005 and MAVEN datasets show that CLEVE achieves significant improvements, especially in the challenging unsupervised setting. The source code and pre-trained checkpoints can be obtained from https://github.com/THU-KEG/CLEVE.
Recent work has shown that, when integrated with adversarial training, self-supervised pre-training can lead to state-of-the-art robustness In this work, we improve robustness-aware self-supervised pre-training by learning representations that are consistent under both data augmentations and adversarial perturbations. Our approach leverages a recent contrastive learning framework, which learns representations by maximizing feature consistency under differently augmented views. This fits particularly well with the goal of adversarial robustness, as one cause of adversarial fragility is the lack of feature invariance, i.e., small input perturbations can result in undesirable large changes in features or even predicted labels. We explore various options to formulate the contrastive task, and demonstrate that by injecting adversarial perturbations, contrastive pre-training can lead to models that are both label-efficient and robust. We empirically evaluate the proposed Adversarial Contrastive Learning (ACL) and show it can consistently outperform existing methods. For example on the CIFAR-10 dataset, ACL outperforms the previous state-of-the-art unsupervised robust pre-training approach by 2.99% on robust accuracy and 2.14% on standard accuracy. We further demonstrate that ACL pre-training can improve semi-supervised adversarial training, even when only a few labeled examples are available. Our codes and pre-trained models have been released at: https://github.com/VITA-Group/Adversarial-Contrastive-Learning.
Pre-trained self-supervised models such as BERT have achieved striking success in learning sequence representations, especially for natural language processing. These models typically corrupt the given sequences with certain types of noise, such as masking, shuffling, or substitution, and then try to recover the original input. However, such pre-training approaches are prone to learning representations that are covariant with the noise, leading to the discrepancy between the pre-training and fine-tuning stage. To remedy this, we present ContrAstive Pre-Training (CAPT) to learn noise invariant sequence representations. The proposed CAPT encourages the consistency between representations of the original sequence and its corrupted version via unsupervised instance-wise training signals. In this way, it not only alleviates the pretrain-finetune discrepancy induced by the noise of pre-training, but also aids the pre-trained model in better capturing global semantics of the input via more effective sentence-level supervision. Different from most prior work that focuses on a particular modality, comprehensive empirical evidence on 11 natural language understanding and cross-modal tasks illustrates that CAPT is applicable for both language and vision-language tasks, and obtains surprisingly consistent improvement, including 0.6% absolute gain on GLUE benchmarks and 0.8% absolute increment on $text{NLVR}^2$.
Pre-trained language models (PrLMs) have demonstrated superior performance due to their strong ability to learn universal language representations from self-supervised pre-training. However, even with the help of the powerful PrLMs, it is still challenging to effectively capture task-related knowledge from dialogue texts which are enriched by correlations among speaker-aware utterances. In this work, we present SPIDER, Structural Pre-traIned DialoguE Reader, to capture dialogue exclusive features. To simulate the dialogue-like features, we propose two training objectives in addition to the original LM objectives: 1) utterance order restoration, which predicts the order of the permuted utterances in dialogue context; 2) sentence backbone regularization, which regularizes the model to improve the factual correctness of summarized subject-verb-object triplets. Experimental results on widely used dialogue benchmarks verify the effectiveness of the newly introduced self-supervised tasks.
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