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Currently, many studies view DNA sequences as a special type of language and utilize Transformers to model them. These studies use fixed-length k-mer segmentation and BPE subword tokenization but lack a systematic evaluation to determine…

Computation and Language · Computer Science 2025-07-22 Chenlei Gong , Yuanhe Tian , Lei Mao , Yan Song

Positional encoding mechanisms enable Transformers to model sequential structure and long-range dependencies in text. While absolute positional encodings struggle with extrapolation to longer sequences due to fixed positional…

Computation and Language · Computer Science 2025-09-09 Chang Dai , Hongyu Shan , Mingyang Song , Di Liang

Deep learning models generalize well to in-distribution data but struggle to generalize compositionally, i.e., to combine a set of learned primitives to solve more complex tasks. In sequence-to-sequence (seq2seq) learning, transformers are…

Machine Learning · Computer Science 2021-12-13 Luana Ruiz , Joshua Ainslie , Santiago Ontañón

Standard Transformers have a fixed computational depth, fundamentally limiting their ability to generalize to tasks requiring variable-depth reasoning, such as multi-hop graph traversal or nested logic. We propose a depth-recurrent…

Machine Learning · Computer Science 2026-03-24 Hung-Hsuan Chen

In transformer architectures, position encoding primarily provides a sense of sequence for input tokens. While the original transformer paper's method has shown satisfactory results in general language processing tasks, there have been new…

Computation and Language · Computer Science 2024-03-26 Eren Unlu

Layer-wise normalization (LN) is an essential component of virtually all transformer-based large language models. While its effects on training stability are well documented, its role at inference time is poorly understood. Additionally, LN…

Machine Learning · Computer Science 2025-07-04 Luca Baroni , Galvin Khara , Joachim Schaeffer , Marat Subkhankulov , Stefan Heimersheim

Transformer models are powerful sequence-to-sequence architectures that are capable of directly mapping speech inputs to transcriptions or translations. However, the mechanism for modeling positions in this model was tailored for text…

Audio and Speech Processing · Electrical Eng. & Systems 2020-05-21 Ngoc-Quan Pham , Thanh-Le Ha , Tuan-Nam Nguyen , Thai-Son Nguyen , Elizabeth Salesky , Sebastian Stueker , Jan Niehues , Alexander Waibel

We introduce Transformer Grammars (TGs), a novel class of Transformer language models that combine (i) the expressive power, scalability, and strong performance of Transformers and (ii) recursive syntactic compositions, which here are…

Computation and Language · Computer Science 2022-12-07 Laurent Sartran , Samuel Barrett , Adhiguna Kuncoro , Miloš Stanojević , Phil Blunsom , Chris Dyer

We propose a conditional non-autoregressive neural sequence model based on iterative refinement. The proposed model is designed based on the principles of latent variable models and denoising autoencoders, and is generally applicable to any…

Machine Learning · Computer Science 2018-08-29 Jason Lee , Elman Mansimov , Kyunghyun Cho

We present evidence that language models (LMs) of code can learn to represent the formal semantics of programs, despite being trained only to perform next-token prediction. Specifically, we train a Transformer model on a synthetic corpus of…

Machine Learning · Computer Science 2024-08-06 Charles Jin , Martin Rinard

Language Models (LMs) recently incorporate mixture-of-experts layers consisting of a router and a collection of experts to scale up their parameter count given a fixed computational budget. Building on previous efforts indicating that…

Computation and Language · Computer Science 2024-09-24 Stefan Arnold , Marian Fietta , Dilara Yesilbas

The attention mechanism is a core primitive in modern large language models (LLMs) and AI more broadly. Since attention by itself is permutation-invariant, position encoding is essential for modeling structured domains such as language.…

Computation and Language · Computer Science 2026-02-05 Songlin Yang , Yikang Shen , Kaiyue Wen , Shawn Tan , Mayank Mishra , Liliang Ren , Rameswar Panda , Yoon Kim

Learning deeper models is usually a simple and effective approach to improve model performance, but deeper models have larger model parameters and are more difficult to train. To get a deeper model, simply stacking more layers of the model…

Computation and Language · Computer Science 2021-08-27 GuoLiang Li , Yiyang Li

Increase in data, size, or compute can lead to sudden learning of specific capabilities by a neural network -- a phenomenon often called "emergence''. Beyond scientific understanding, establishing the causal factors underlying such emergent…

Machine Learning · Computer Science 2024-09-10 Ekdeep Singh Lubana , Kyogo Kawaguchi , Robert P. Dick , Hidenori Tanaka

Multilingual translation suffers from computational redundancy, especially when translating into multiple languages simultaneously. In addition, translation quality can suffer for low-resource languages. To address this, we introduce…

Computation and Language · Computer Science 2026-03-18 Yiwen Guan , Jacob Whitehill

Semantic parsing using sequence-to-sequence models allows parsing of deeper representations compared to traditional word tagging based models. In spite of these advantages, widespread adoption of these models for real-time conversational…

Computation and Language · Computer Science 2021-04-13 Arun Babu , Akshat Shrivastava , Armen Aghajanyan , Ahmed Aly , Angela Fan , Marjan Ghazvininejad

Acoustic word embeddings (AWEs) aims to map a variable-length speech segment into a fixed-dimensional representation. High-quality AWEs should be invariant to variations, such as duration, pitch and speaker. In this paper, we introduce a…

Audio and Speech Processing · Electrical Eng. & Systems 2023-07-20 Jingru Lin , Xianghu Yue , Junyi Ao , Haizhou Li

A recent body of work has demonstrated that Transformer embeddings can be linearly decomposed into well-defined sums of factors, that can in turn be related to specific network inputs or components. There is however still a dearth of work…

Computation and Language · Computer Science 2023-10-12 Timothee Mickus , Raúl Vázquez

The encoder-decoder models for unsupervised sentence representation learning tend to discard the decoder after being trained on a large unlabelled corpus, since only the encoder is needed to map the input sentence into a vector…

Neural and Evolutionary Computing · Computer Science 2019-06-03 Shuai Tang , Virginia R. de Sa

Recent studies have revealed various manifestations of position bias in transformer architectures, from the "lost-in-the-middle" phenomenon to attention sinks, yet a comprehensive theoretical understanding of how attention masks and…

Machine Learning · Computer Science 2025-08-12 Xinyi Wu , Yifei Wang , Stefanie Jegelka , Ali Jadbabaie