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Less than 1% of protein sequences are structurally and functionally annotated. Natural Language Processing (NLP) community has recently embraced self-supervised learning as a powerful approach to learn representations from unlabeled text,…

Biomolecules · Quantitative Biology 2020-12-08 Modestas Filipavicius , Matteo Manica , Joris Cadow , Maria Rodriguez Martinez

Adversarial Reprogramming has demonstrated success in utilizing pre-trained neural network classifiers for alternative classification tasks without modification to the original network. An adversary in such an attack scenario trains an…

Machine Learning · Computer Science 2019-08-16 Paarth Neekhara , Shehzeen Hussain , Shlomo Dubnov , Farinaz Koushanfar

While contrastive learning is proven to be an effective training strategy in computer vision, Natural Language Processing (NLP) is only recently adopting it as a self-supervised alternative to Masked Language Modeling (MLM) for improving…

Computation and Language · Computer Science 2021-09-16 Hooman Sedghamiz , Shivam Raval , Enrico Santus , Tuka Alhanai , Mohammad Ghassemi

In this work we address supervised learning of neural networks via lifted network formulations. Lifted networks are interesting because they allow training on massively parallel hardware and assign energy models to discriminatively trained…

Computer Vision and Pattern Recognition · Computer Science 2019-07-29 Christopher Zach , Virginia Estellers

Pretraining Neural Language Models (NLMs) over a large corpus involves chunking the text into training examples, which are contiguous text segments of sizes processable by the neural architecture. We highlight a bias introduced by this…

Computation and Language · Computer Science 2022-03-22 Yoav Levine , Noam Wies , Daniel Jannai , Dan Navon , Yedid Hoshen , Amnon Shashua

We address the problem of cross-language adaptation for question-question similarity reranking in community question answering, with the objective to port a system trained on one input language to another input language given labeled…

Computation and Language · Computer Science 2017-06-22 Shafiq Joty , Preslav Nakov , Lluís Màrquez , Israa Jaradat

Recently, prompt tuning \cite{lester2021power} has gradually become a new paradigm for NLP, which only depends on the representation of the words by freezing the parameters of pre-trained language models (PLMs) to obtain remarkable…

Computation and Language · Computer Science 2022-01-31 Pan He , Yuxi Chen , Yan Wang , Yanru Zhang

While convolutional neural networks (CNNs) have achieved excellent performances in various computer vision tasks, they often misclassify with malicious samples, a.k.a. adversarial examples. Adversarial training is a popular and…

Computer Vision and Pattern Recognition · Computer Science 2023-02-17 Hiroki Adachi , Tsubasa Hirakawa , Takayoshi Yamashita , Hironobu Fujiyoshi , Yasunori Ishii , Kazuki Kozuka

With the abundance of large-scale deep learning models, it has become possible to repurpose pre-trained networks for new tasks. Recent works on adversarial reprogramming have shown that it is possible to repurpose neural networks for…

Artificial Intelligence · Computer Science 2021-10-26 Paarth Neekhara , Shehzeen Hussain , Jinglong Du , Shlomo Dubnov , Farinaz Koushanfar , Julian McAuley

Representation learning for proteins has primarily focused on the global understanding of protein sequences regardless of their length. However, shorter proteins (known as peptides) take on distinct structures and functions compared to…

Quantitative Methods · Quantitative Biology 2022-11-15 Gil Sadeh , Zichen Wang , Jasleen Grewal , Huzefa Rangwala , Layne Price

Adversarial examples in NLP are receiving increasing research attention. One line of investigation is the generation of word-level adversarial examples against fine-tuned Transformer models that preserve naturalness and grammaticality.…

Computation and Language · Computer Science 2022-10-24 Maximilian Mozes , Bennett Kleinberg , Lewis D. Griffin

Large-scale pre-trained models such as CodeBERT, GraphCodeBERT have earned widespread attention from both academia and industry. Attributed to the superior ability in code representation, they have been further applied in multiple…

Software Engineering · Computer Science 2023-01-24 Shangqing Liu , Bozhi Wu , Xiaofei Xie , Guozhu Meng , Yang Liu

Learning high-quality text representations is fundamental to a wide range of NLP tasks. While encoder pretraining has traditionally relied on Masked Language Modeling (MLM), recent evidence suggests that decoder models pretrained with…

Transfer learning from pretrained language models recently became the dominant approach for solving many NLP tasks. A common approach to transfer learning for multiple tasks that maximize parameter sharing trains one or more task-specific…

Computation and Language · Computer Science 2021-06-03 Karen Hambardzumyan , Hrant Khachatrian , Jonathan May

While vision and multimodal foundation models underpin critical tasks from perception to complex reasoning, they remain highly vulnerable to adversarial attacks. However, traditional adversarial attacks are typically limited to single,…

Cryptography and Security · Computer Science 2026-05-20 Ye Sun , Xin Wang , Jiaming Zhang , Yifeng Gao , Yixu Wang , Yifan Ding , Qixian Zhang , Henghui Ding , Xingjun Ma , Yu-Gang Jiang

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…

Computer Vision and Pattern Recognition · Computer Science 2020-10-27 Ziyu Jiang , Tianlong Chen , Ting Chen , Zhangyang Wang

The integration of visual and textual data in Vision-Language Pre-training (VLP) models is crucial for enhancing vision-language understanding. However, the adversarial robustness of these models, especially in the alignment of image-text…

Multimedia · Computer Science 2025-06-03 Youze Wang , Wenbo Hu , Yinpeng Dong , Hanwang Zhang , Hang Su , Richang Hong

In recent years, Large Language Models (LLMs) have emerged as a prominent area of interest across various research domains, including Process Mining (PM). Current applications in PM have predominantly centered on prompt engineering…

Computation and Language · Computer Science 2025-09-04 Rafael Seidi Oyamada , Jari Peeperkorn , Jochen De Weerdt , Johannes De Smedt

Adversarial training is one of the most effective approaches defending against adversarial examples for deep learning models. Unlike other defense strategies, adversarial training aims to promote the robustness of models intrinsically.…

Machine Learning · Computer Science 2021-04-22 Tao Bai , Jinqi Luo , Jun Zhao , Bihan Wen , Qian Wang

Protein research is crucial in various fundamental disciplines, but understanding their intricate structure-function relationships remains challenging. Recent Large Language Models (LLMs) have made significant strides in comprehending…

Computational Engineering, Finance, and Science · Computer Science 2025-01-24 Chao Wang , Hehe Fan , Ruijie Quan , Yi Yang
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