Create a dataset loader for GAD corpus

[ruisi-su]

Adding a Dataset

• Name: Genetic Association Database Corpus
• Description: a corpus identifying associations between genes and diseases by a semi-automatic annotation procedure based on the Genetic Association Database
• Task: RE
• Paper: paper
• Data: data from this issue
• License: CC BY 4.0
• Motivation: part of BLURB

[tmabraham]

FYI - the issue you linked clearly highlighted this data has questionable labels as a weakly-labeled dataset.

The author of the paper also said:

To conclude, I agree that the GAD and EUADR datasets are weakly supervised (distant supervision) datasets. And since we now have multiple high-quality BioRE datasets, I personally suggest that we need to refrain from using weakly labeled datasets and move to use other datasets such as ChemProt, DrugProt, or other human-labeled datasets for evaluating BioLMs.

• RE datasets dmis-lab/biobert#162 (comment)

[ruisi-su]

Thanks @tmabraham for looking into this. I remember about GAD's labels generating confusions when I was tracking down this dataset. This issue was created to stay consistent with the BLURB dataset. However, I think your point (along with others' concern about this dataset) is very valid. We will discuss and get back to you on this!

[jason-fries]

Actually @ruisi-su @tmabraham , can we keep this as high priority for implementation? The only valid reason to deprioritize a dataset used in a standard benchmark is if that dataset isn’t public. More generally, as a research question, we’re interested in models trained with labels with different provenance (e.g., weakly supervised) to measure performance tradeoffs. From this perspective, datasets like these are quite valuable.

[SamuelCahyawijaya]

#self-assign