English
Related papers

Related papers: A deep language model to predict metabolic network…

200 papers

Scientists often use observational time series data to study complex natural processes, but regression analyses often assume simplistic dynamics. Recent advances in deep learning have yielded startling improvements to the performance of…

Machine Learning · Computer Science 2023-04-21 Cory Shain , William Schuler

Deep learning has been successful in automating the design of features in machine learning pipelines. However, the algorithms optimizing neural network parameters remain largely hand-designed and computationally inefficient. We study if we…

Machine Learning · Computer Science 2021-10-26 Boris Knyazev , Michal Drozdzal , Graham W. Taylor , Adriana Romero-Soriano

Deep learning (DL) models based on the transformer architecture have revolutionized many DL applications such as large language models (LLMs), vision transformers, audio generation, and time series prediction. Much of this progress has been…

Distributed, Parallel, and Cluster Computing · Computer Science 2024-08-20 Quentin Anthony , Benjamin Michalowicz , Jacob Hatef , Lang Xu , Mustafa Abduljabbar , Aamir Shafi , Hari Subramoni , Dhabaleswar Panda

The process by which Large Language Models (LLMs) acquire complex capabilities during training remains a key open question in mechanistic interpretability. This project investigates whether these learning dynamics can be characterized…

Machine Learning · Computer Science 2025-09-22 Elisabetta Rocchetti

Natural Language Processing enables computers to understand human language by analysing and classifying text efficiently with deep-level grammatical and semantic features. Existing models capture features by learning from large corpora with…

Computation and Language · Computer Science 2026-02-25 Azrin Sultana , Firoz Ahmed

Recent genomic and bioinformatic advances have motivated the development of numerous random network models purporting to describe graphs of biological, technological, and sociological origin. The success of a model has been evaluated by how…

Molecular Networks · Quantitative Biology 2007-05-23 Manuel Middendorf , Etay Ziv , Carter Adams , Jen Hom , Robin Koytcheff , Chaya Levovitz , Gregory Woods , Linda Chen , Chris Wiggins

This paper addresses the task of set prediction using deep feed-forward neural networks. A set is a collection of elements which is invariant under permutation and the size of a set is not fixed in advance. Many real-world problems, such as…

Computer Vision and Pattern Recognition · Computer Science 2021-10-26 Hamid Rezatofighi , Tianyu Zhu , Roman Kaskman , Farbod T. Motlagh , Qinfeng Shi , Anton Milan , Daniel Cremers , Laura Leal-Taixé , Ian Reid

We develop an algorithm for systematic design of a large artificial neural network using a progression property. We find that some non-linear functions, such as the rectifier linear unit and its derivatives, hold the property. The…

Neural and Evolutionary Computing · Computer Science 2017-10-24 Saikat Chatterjee , Alireza M. Javid , Mostafa Sadeghi , Partha P. Mitra , Mikael Skoglund

We present an interpretable neural network approach to predicting and understanding politeness in natural language requests. Our models are based on simple convolutional neural networks directly on raw text, avoiding any manual…

Computation and Language · Computer Science 2016-10-11 Malika Aubakirova , Mohit Bansal

Deep Learning (DL) models can be used to tackle time series analysis tasks with great success. However, the performance of DL models can degenerate rapidly if the data are not appropriately normalized. This issue is even more apparent when…

Computational Finance · Quantitative Finance 2019-09-24 Nikolaos Passalis , Anastasios Tefas , Juho Kanniainen , Moncef Gabbouj , Alexandros Iosifidis

We find limits to the Transformer architecture for language modeling and show it has a universal prediction property in an information-theoretic sense. We further analyze performance in non-asymptotic data regimes to understand the role of…

Machine Learning · Computer Science 2023-07-18 Sourya Basu , Moulik Choraria , Lav R. Varshney

Deep learning models have proven to be exceptionally useful in performing many machine learning tasks. However, for each new dataset, choosing an effective size and structure of the model can be a time-consuming process of trial and error.…

Machine Learning · Computer Science 2019-08-08 Roozbeh Yousefzadeh , Dianne P O'Leary

Networks are widely used in the biological, physical, and social sciences as a concise mathematical representation of the topology of systems of interacting components. Understanding the structure of these networks is one of the outstanding…

Data Analysis, Statistics and Probability · Physics 2007-06-21 M. E. J. Newman , E. A. Leicht

In this paper we combine the advantages of a model using global source sentence contexts, the Discriminative Word Lexicon, and neural networks. By using deep neural networks instead of the linear maximum entropy model in the Discriminative…

Computation and Language · Computer Science 2015-04-29 Thanh-Le Ha , Jan Niehues , Alex Waibel

By extending the extreme learning machine by additional control inputs, we achieved almost complete reproduction of bifurcation structures of dynamical systems. The learning ability of the proposed neural network system is striking in that…

Chaotic Dynamics · Physics 2024-10-21 Satoru Tadokoro , Akihiro Yamaguchi , Takao Namiki , Ichiro Tsuda

Identifying governing equations for a dynamical system is a topic of critical interest across an array of disciplines, from mathematics to engineering to biology. Machine learning -- specifically deep learning -- techniques have shown their…

Dynamical Systems · Mathematics 2026-05-07 Nibodh Boddupalli , Timothy Matchen , Jeff Moehlis

Recent research suggests that the feed-forward module within Transformers can be viewed as a collection of key-value memories, where the keys learn to capture specific patterns from the input based on the training examples. The values then…

Computation and Language · Computer Science 2023-10-25 Sunit Bhattacharya , Ondrej Bojar

Drug combination therapy is a well-established strategy for disease treatment with better effectiveness and less safety degradation. However, identifying novel drug combinations through wet-lab experiments is resource intensive due to the…

Machine Learning · Computer Science 2023-01-18 Zhihang Hu , Qinze Yu , Yucheng Guo , Taifeng Wang , Irwin King , Xin Gao , Le Song , Yu Li

The empirical success of deep learning is often attributed to deep networks' ability to exploit hierarchical structure in data, constructing increasingly complex features across layers. Yet despite substantial progress in deep learning…

Machine Learning · Computer Science 2026-01-28 Yunwei Ren , Yatin Dandi , Florent Krzakala , Jason D. Lee

Planning is a crucial element of both human intelligence and contemporary large language models (LLMs). In this paper, we initiate a theoretical investigation into the emergence of planning capabilities in Transformer-based LLMs via their…

Machine Learning · Computer Science 2024-11-12 Siwei Wang , Yifei Shen , Shi Feng , Haoran Sun , Shang-Hua Teng , Wei Chen