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Masked language modelling (MLM) as a pretraining objective has been widely adopted in genomic sequence modelling. While pretrained models can successfully serve as encoders for various downstream tasks, the distribution shift between…

Machine Learning · Computer Science 2025-02-26 Monireh Safari , Pablo Millan Arias , Scott C. Lowe , Lila Kari , Angel X. Chang , Graham W. Taylor

Understanding the relationships between protein sequence, structure and function is a long-standing biological challenge with manifold implications from drug design to our understanding of evolution. Recently, protein language models have…

Quantitative Methods · Quantitative Biology 2024-01-29 Dexiong Chen , Philip Hartout , Paolo Pellizzoni , Carlos Oliver , Karsten Borgwardt

Sentence embedding tasks are important in natural language processing (NLP), but improving their performance while keeping them reliable is still hard. This paper presents a framework that combines pseudo-label generation and model ensemble…

Computation and Language · Computer Science 2025-01-28 Ziwei Liu , Qi Zhang , Lifu Gao

Large language models are powerful but costly. We ask whether meta-learning can make the pretraining of small language models not only better but also more interpretable. We integrate first-order MAML with subset-masked LM pretraining,…

Computation and Language · Computer Science 2025-11-10 David Demitri Africa , Yuval Weiss , Paula Buttery , Richard Diehl Martinez

Transformers-based pretrained language models achieve outstanding results in many well-known NLU benchmarks. However, while pretraining methods are very convenient, they are expensive in terms of time and resources. This calls for a study…

Computation and Language · Computer Science 2021-09-10 Laura Pérez-Mayos , Miguel Ballesteros , Leo Wanner

Unsupervised pretraining models have been shown to facilitate a wide range of downstream NLP applications. These models, however, retain some of the limitations of traditional static word embeddings. In particular, they encode only the…

Computation and Language · Computer Science 2020-04-21 Anne Lauscher , Ivan Vulić , Edoardo Maria Ponti , Anna Korhonen , Goran Glavaš

We investigate transformer-based language models, including RoBERTa, T5, Llama-3, and MatSciBERT, for predicting the band gaps of semiconductor materials directly from textual descriptions. The inputs encode key material features, such as…

Computation and Language · Computer Science 2025-10-24 Ying-Ting Yeh , Janghoon Ock , Achuth Chandrasekhar , Shagun Maheshwari , Amir Barati Farimani

Pre-trained masked language models have demonstrated remarkable ability as few-shot learners. In this paper, as an alternative, we propose a novel approach to few-shot learning with pre-trained token-replaced detection models like ELECTRA.…

Computation and Language · Computer Science 2023-03-22 Zicheng Li , Shoushan Li , Guodong Zhou

Pre-trained word embeddings learned from unlabeled text have become a standard component of neural network architectures for NLP tasks. However, in most cases, the recurrent network that operates on word-level representations to produce…

Computation and Language · Computer Science 2017-05-02 Matthew E. Peters , Waleed Ammar , Chandra Bhagavatula , Russell Power

Self-supervised neural language models with attention have recently been applied to biological sequence data, advancing structure, function and mutational effect prediction. Some protein language models, including MSA Transformer and…

Biomolecules · Quantitative Biology 2022-10-25 Umberto Lupo , Damiano Sgarbossa , Anne-Florence Bitbol

Pre-trained Large Language Models (LLMs) have shown success in a diverse set of language inference and understanding tasks. The pre-training stage of LLMs looks at a large corpus of raw textual data. The BabyLM shared task compares LLM…

Computation and Language · Computer Science 2024-01-11 Khushi Bhardwaj , Raj Sanjay Shah , Sashank Varma

The performance of deep learning-based natural language processing systems is based on large amounts of labeled training data which, in the clinical domain, are not easily available or affordable. Weak supervision and in-context learning…

Computation and Language · Computer Science 2025-04-02 Enshuo Hsu , Kirk Roberts

Relation classification is an important NLP task to extract relations between entities. The state-of-the-art methods for relation classification are primarily based on Convolutional or Recurrent Neural Networks. Recently, the pre-trained…

Computation and Language · Computer Science 2019-05-22 Shanchan Wu , Yifan He

Fine-tuning LLMs for classification typically maps inputs directly to labels. We ask whether attaching brief explanations to each label during fine-tuning yields better models. We evaluate conversational response quality along three axes:…

Machine Learning · Computer Science 2026-03-03 Vivswan Shah , Randy Cogill , Hanwei Yue , Gopinath Chennupati , Rinat Khaziev

Large pre-trained language models (LMs) such as GPT-3 have acquired a surprising ability to perform zero-shot learning. For example, to classify sentiment without any training examples, we can "prompt" the LM with the review and the label…

Computation and Language · Computer Science 2021-09-09 Ruiqi Zhong , Kristy Lee , Zheng Zhang , Dan Klein

Domain adaptation for large neural language models (NLMs) is coupled with massive amounts of unstructured data in the pretraining phase. In this study, however, we show that pretrained NLMs learn in-domain information more effectively and…

Computation and Language · Computer Science 2022-08-30 Shahriar Golchin , Mihai Surdeanu , Nazgol Tavabi , Ata Kiapour

Recent years have witnessed the burgeoning of pretrained language models (LMs) for text-based natural language (NL) understanding tasks. Such models are typically trained on free-form NL text, hence may not be suitable for tasks like…

Computation and Language · Computer Science 2020-05-19 Pengcheng Yin , Graham Neubig , Wen-tau Yih , Sebastian Riedel

While large general-purpose Transformer-based encoders excel at general language understanding, their performance diminishes in specialized domains like manufacturing due to a lack of exposure to domain-specific terminology and semantics.…

Computation and Language · Computer Science 2025-11-10 Robin Armingaud , Romaric Besançon

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

Masked language modeling (MLM) is one of the key sub-tasks in vision-language pretraining. In the cross-modal setting, tokens in the sentence are masked at random, and the model predicts the masked tokens given the image and the text. In…

Computation and Language · Computer Science 2021-09-07 Yonatan Bitton , Gabriel Stanovsky , Michael Elhadad , Roy Schwartz
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