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Synthesis of DNA molecules offers unprecedented advances in storage technology. Yet, the microscopic world in which these molecules reside induces error patterns that are fundamentally different from their digital counterparts. Hence, to…

Information Theory · Computer Science 2017-08-08 Netanel Raviv , Moshe Schwartz , Eitan Yaakobi

Learned feature representations and sub-phoneme posteriors from Deep Neural Networks (DNNs) have been used separately to produce significant performance gains for speaker and language recognition tasks. In this work we show how these gains…

Computation and Language · Computer Science 2015-04-06 Fred Richardson , Douglas Reynolds , Najim Dehak

Token representation strategies within large-scale neural architectures often rely on contextually refined embeddings, yet conventional approaches seldom encode structured relationships explicitly within token interactions. Self-attention…

Computation and Language · Computer Science 2025-03-27 James Blades , Frederick Somerfield , William Langley , Susan Everingham , Maurice Witherington

Pre-training is crucial for large language models (LLMs), as it is when most representations and capabilities are acquired. However, natural language pre-training has problems: high-quality text is finite, it contains human biases, and it…

Machine Learning · Computer Science 2026-03-12 Dan Lee , Seungwook Han , Akarsh Kumar , Pulkit Agrawal

In this paper we propose the Structured Deep Neural Network (structured DNN) as a structured and deep learning framework. This approach can learn to find the best structured object (such as a label sequence) given a structured input (such…

Computation and Language · Computer Science 2015-11-10 Yi-Hsiu Liao , Hung-yi Lee , Lin-shan Lee

We present an approach for assessing how multilingual large language models (LLMs) learn syntax in terms of multi-formalism syntactic structures. We aim to recover constituent and dependency structures by casting parsing as sequence…

Computation and Language · Computer Science 2023-09-21 Alberto Muñoz-Ortiz , David Vilares , Carlos Gómez-Rodríguez

Recent advancements in large language models (LLMs) have remarkably enhanced performances on a variety of tasks in multiple languages. However, tokenizers in LLMs trained primarily on English-centric corpora often overly fragment a text…

Computation and Language · Computer Science 2024-08-07 Jimin Hong , Gibbeum Lee , Jaewoong Cho

Currently there are two predominant ways to train deep neural networks. The first one uses restricted Boltzmann machine (RBM) and the second one autoencoders. RBMs are stacked in layers to form deep belief network (DBN); the final…

Machine Learning · Computer Science 2016-12-23 Vanika Singhal , Shikha Singh , Angshul Majumdar

The best performing transformer-based language models use subword tokenization techniques, such as Byte-Pair-Encoding (BPE). However, these approaches often overlook linguistic principles, such as morphological segmentation, which we…

Computation and Language · Computer Science 2025-04-03 Mikkel Wildner Kildeberg , Emil Allerslev Schledermann , Nicolaj Larsen , Rob van der Goot

Latent Dirichlet allocation (LDA) is widely used for unsupervised topic modelling on sets of documents. No temporal information is used in the model. However, there is often a relationship between the corresponding topics of consecutive…

Audio and Speech Processing · Electrical Eng. & Systems 2022-06-30 Werner van der Merwe , Herman Kamper , Johan du Preez

Speech tokenizers are a key building block of fully discrete Speech LLMs.Existing tokenizers either prioritize semantic encoding,fuse semantic content with acoustic style inseparably,or achieve incomplete semantic-acoustic…

Sound · Computer Science 2026-05-28 Hanlin Zhang , Daxin Tan , Dehua Tao , Xiao Chen , Haochen Tan , Yunhe Li , Yuchen Cao , Linqi Song

This paper demonstrates that language models are strong structure-based protein designers. We present LM-Design, a generic approach to reprogramming sequence-based protein language models (pLMs), that have learned massive sequential…

Machine Learning · Computer Science 2023-02-10 Zaixiang Zheng , Yifan Deng , Dongyu Xue , Yi Zhou , Fei YE , Quanquan Gu

Deep neural networks are inherently opaque and challenging to interpret. Unlike hand-crafted feature-based models, we struggle to comprehend the concepts learned and how they interact within these models. This understanding is crucial not…

Computation and Language · Computer Science 2023-07-12 Shammur Absar Chowdhury , Nadir Durrani , Ahmed Ali

Sequential data naturally have different lengths in many domains, with some very long sequences. As an important modeling tool, neural attention should capture long-range interaction in such sequences. However, most existing neural…

Machine Learning · Computer Science 2023-05-09 Ruslan Khalitov , Tong Yu , Lei Cheng , Zhirong Yang

This paper presents a novel hybrid tokenization strategy that enhances the performance of DNA Language Models (DLMs) by combining 6-mer tokenization with Byte Pair Encoding (BPE-600). Traditional k-mer tokenization is effective at capturing…

Computation and Language · Computer Science 2025-07-25 Ganesh Sapkota , Md Hasibur Rahman

Recent advances in large language models using deep learning techniques have renewed interest on how languages can be learned from data. However, it is unclear whether or how these models represent grammatical information from the learned…

Computation and Language · Computer Science 2024-02-20 Jérôme Michaud , Anna Jon-and

Statistical language modeling techniques have successfully been applied to source code, yielding a variety of new software development tools, such as tools for code suggestion and improving readability. A major issue with these techniques…

Software Engineering · Computer Science 2019-03-15 Rafael-Michael Karampatsis , Charles Sutton

Transformers, the de-facto standard for language modeling, have been recently applied for vision tasks. This paper introduces sparse queries for vision transformers to exploit the intrinsic spatial redundancy of natural images and save…

Computer Vision and Pattern Recognition · Computer Science 2023-01-11 Lin Song , Songyang Zhang , Songtao Liu , Zeming Li , Xuming He , Hongbin Sun , Jian Sun , Nanning Zheng

We address the problem of acoustic source separation in a deep learning framework we call "deep clustering." Rather than directly estimating signals or masking functions, we train a deep network to produce spectrogram embeddings that are…

Neural and Evolutionary Computing · Computer Science 2015-08-19 John R. Hershey , Zhuo Chen , Jonathan Le Roux , Shinji Watanabe

In this work, we address the challenging task of referring segmentation. The query expression in referring segmentation typically indicates the target object by describing its relationship with others. Therefore, to find the target one…

Computer Vision and Pattern Recognition · Computer Science 2021-08-13 Henghui Ding , Chang Liu , Suchen Wang , Xudong Jiang