Building a Relation Extraction Baseline for Gene-Disease Associations: A Reproducibility Study
This provides a reproducible baseline for researchers in biomedical text mining, though it is incremental as it focuses on replication rather than new methods.
The researchers reproduced the DEXTER system to extract Gene-Disease Associations from biomedical abstracts, aiming to establish a benchmark for future Relation Extraction works.
Reproducibility is an important task in scientific research. It is crucial for researchers to compare newly developed systems with the state-of-the-art to assess whether they made a breakthrough. However previous works may not be immediately reproducible, for example due to the lack of source code. In this work we reproduce DEXTER, a system to automatically extract Gene-Disease Associations (GDAs) from biomedical abstracts. The goal is to provide a benchmark for future works regarding Relation Extraction (RE), enabling researchers to test and compare their results.