Revised (shortcut-controlled) datasets
Datasets for the revised Emergence of Biological Structural Discovery in General-Purpose Language Models. These remove the length and composition shortcuts present in naive constructions.
protein_pairs_matched.csv— standard homology, length-matched negatives (|len1-len2| ~2.6 for both classes). Columns: sentence1, sentence2, label, split.protein_pairs_remote_matched.csv— remote homology (<25% identity, SCOP same-superfamily), length-matched; no length/composition/k-mer shortcut (a length+composition classifier scores 0.50, chance). Columns: sentence1, sentence2, label, split.
split ∈ {train, val, test}. Validation is used only for polarity calibration; test is never used
for model selection. Code: https://github.com/maris205/biopaws