HyperPIE: Hyperparameter Information Extraction from Scientific Publications

TL;DR

HyperPIE introduces a novel approach for extracting hyperparameter information from scientific publications using fine-tuned BERT models and large language models, significantly improving extraction accuracy and enabling large-scale analysis across disciplines.

Contribution

The paper formalizes hyperparameter extraction as an entity and relation recognition task, creating a labeled dataset and developing models that outperform existing methods.

Findings

29% F1 improvement over baseline for relation extraction

5.5% F1 improvement in entity recognition using large language models

Enabled large-scale hyperparameter analysis across disciplines

Abstract

Automatic extraction of information from publications is key to making scientific knowledge machine readable at a large scale. The extracted information can, for example, facilitate academic search, decision making, and knowledge graph construction. An important type of information not covered by existing approaches is hyperparameters. In this paper, we formalize and tackle hyperparameter information extraction (HyperPIE) as an entity recognition and relation extraction task. We create a labeled data set covering publications from a variety of computer science disciplines. Using this data set, we train and evaluate BERT-based fine-tuned models as well as five large language models: GPT-3.5, GALACTICA, Falcon, Vicuna, and WizardLM. For fine-tuned models, we develop a relation extraction approach that achieves an improvement of 29% F1 over a state-of-the-art baseline. For large language models, we develop an approach leveraging YAML output for structured data extraction, which achieves an average improvement of 5.5% F1 in entity recognition over using JSON. With our best performing model we extract hyperparameter information from a large number of unannotated papers, and analyze patterns across disciplines. All our data and source code is publicly available at https://github.com/IllDepence/hyperpie