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Recent advancements in large language models (LLMs) have shown significant potential for automating hardware description language (HDL) code generation from high-level natural language instructions. While fine-tuning has improved LLMs'…

Hardware Architecture · Computer Science 2025-02-27 Yi Liu , Changran Xu , Yunhao Zhou , Zeju Li , Qiang Xu

Given usefulness of protein language models (LMs) in structure and functional inference, RNA LMs have received increased attentions in the last few years. However, these RNA models are often not compared against the same standard. Here, we…

Biomolecules · Quantitative Biology 2025-05-15 He Wang , Yikun Zhang , Jie Chen , Jian Zhan , Yaoqi Zhou

Understanding biological processes, drug development, and biotechnological advancements requires a detailed analysis of protein structures and functions, a task that is inherently complex and time-consuming in traditional protein research.…

Artificial Intelligence · Computer Science 2025-04-21 Yijia Xiao , Edward Sun , Yiqiao Jin , Qifan Wang , Wei Wang

Recent years have witnessed the rapid advance in neural machine translation (NMT), the core of which lies in the encoder-decoder architecture. Inspired by the recent progress of large-scale pre-trained language models on machine translation…

Computation and Language · Computer Science 2021-06-28 Shuo Wang , Zhaopeng Tu , Zhixing Tan , Wenxuan Wang , Maosong Sun , Yang Liu

Protein language models (PLMs) have shown promise in improving the understanding of protein sequences, contributing to advances in areas such as function prediction and protein engineering. However, training these models from scratch…

Machine Learning · Computer Science 2024-12-19 Shivasankaran Vanaja Pandi , Bharath Ramsundar

Joint image-text embedding is the bedrock for most Vision-and-Language (V+L) tasks, where multimodality inputs are simultaneously processed for joint visual and textual understanding. In this paper, we introduce UNITER, a UNiversal…

Computer Vision and Pattern Recognition · Computer Science 2020-07-21 Yen-Chun Chen , Linjie Li , Licheng Yu , Ahmed El Kholy , Faisal Ahmed , Zhe Gan , Yu Cheng , Jingjing Liu

Neural Machine Translation (NMT) has become a significant technology in natural language processing through extensive research and development. However, the deficiency of high-quality bilingual language pair data still poses a major…

Computation and Language · Computer Science 2024-01-17 Soon-Jae Hwang , Chang-Sung Jeong

Developing therapeutics is a lengthy and expensive process that requires the satisfaction of many different criteria, and AI models capable of expediting the process would be invaluable. However, the majority of current AI approaches…

As one of their many applications, large language models (LLMs) have recently shown promise in automating register transfer level (RTL) code generation. However, conventional LLM decoding strategies, originally designed for natural…

Programming Languages · Computer Science 2025-07-04 Mohammad Akyash , Kimia Azar , Hadi Kamali

In this paper, we take the advantage of previous pre-trained models (PTMs) and propose a novel Chinese Pre-trained Unbalanced Transformer (CPT). Different from previous Chinese PTMs, CPT is designed to utilize the shared knowledge between…

Computation and Language · Computer Science 2022-07-19 Yunfan Shao , Zhichao Geng , Yitao Liu , Junqi Dai , Hang Yan , Fei Yang , Li Zhe , Hujun Bao , Xipeng Qiu

Protein Language Models (PLMs) have emerged as performant and scalable tools for predicting the functional impact and clinical significance of protein-coding variants, but they still lag experimental accuracy. Here, we present a novel…

Using a language model (LM) pretrained on two languages with large monolingual data in order to initialize an unsupervised neural machine translation (UNMT) system yields state-of-the-art results. When limited data is available for one…

Computation and Language · Computer Science 2020-10-07 Alexandra Chronopoulou , Dario Stojanovski , Alexander Fraser

Protein language models (PLMs) have advanced computational protein science through large-scale pretraining and scalable architectures. In parallel, reinforcement learning (RL) has broadened exploration and enabled precise multi-objective…

Large-scale Protein Language Models (PLMs) have improved performance in protein prediction tasks, ranging from 3D structure prediction to various function predictions. In particular, AlphaFold, a ground-breaking AI system, could potentially…

Quantitative Methods · Quantitative Biology 2022-10-18 Mingyang Hu , Fajie Yuan , Kevin K. Yang , Fusong Ju , Jin Su , Hui Wang , Fei Yang , Qiuyang Ding

The parallels between protein sequences and natural language in their sequential structures have inspired the application of large language models (LLMs) to protein understanding. Despite the success of LLMs in NLP, their effectiveness in…

Quantitative Methods · Quantitative Biology 2024-07-09 Yiqing Shen , Zan Chen , Michail Mamalakis , Luhan He , Haiyang Xia , Tianbin Li , Yanzhou Su , Junjun He , Yu Guang Wang

Molecular dynamics (MD) is a powerful approach for modelling molecular systems, but it remains computationally intensive on spatial and time scales of many macromolecular systems of biological interest. To explore the opportunities offered…

Biomolecules · Quantitative Biology 2025-08-07 Mhd Hussein Murtada , Z. Faidon Brotzakis , Michele Vendruscolo

Decoder-only LLMs have shown impressive performance in MT due to their ability to learn from extensive datasets and generate high-quality translations. However, LLMs often struggle with the nuances and style required for…

Computation and Language · Computer Science 2024-09-11 Inacio Vieira , Will Allred , Séamus Lankford , Sheila Castilho , Andy Way

Unsupervised cross-lingual pretraining has achieved strong results in neural machine translation (NMT), by drastically reducing the need for large parallel data. Most approaches adapt masked-language modeling (MLM) to sequence-to-sequence…

Computation and Language · Computer Science 2021-06-11 Christos Baziotis , Ivan Titov , Alexandra Birch , Barry Haddow

Transformers have revolutionized Computer Vision (CV) through self-attention mechanisms. However, their complexity makes latent token representations difficult to interpret. We introduce ULTra, a framework for interpreting Transformer…

Computer Vision and Pattern Recognition · Computer Science 2026-01-06 Hesam Hosseini , Ghazal Hosseini Mighan , Amirabbas Afzali , Sajjad Amini , Amir Houmansadr

Unsupervised neural machine translation(NMT) is associated with noise and errors in synthetic data when executing vanilla back-translations. Here, we explicitly exploits language model(LM) to drive construction of an unsupervised NMT…

Computation and Language · Computer Science 2019-11-12 Wei Zhang , Youyuan Lin , Ruoran Ren , Xiaodong Wang , Zhenshuang Liang , Zhen Huang