BioCon is the first benchmark dataset and cross-modal framework for detecting inconsistencies between methodological descriptions in bioinformatics papers and their code implementations.
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FARM adds atomic-level functional group annotations to create FG-enhanced SMILES and FG graphs, trains them with masked language modeling and GNNs plus contrastive alignment, and reports state-of-the-art results on 8 of 13 MoleculeNet tasks.
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Do Papers Tell the Whole Story? A Benchmark and Framework for Uncovering Hidden Implementation Gaps in Bioinformatics
BioCon is the first benchmark dataset and cross-modal framework for detecting inconsistencies between methodological descriptions in bioinformatics papers and their code implementations.
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FARM: Enhancing Molecular Representations with Functional Group Awareness
FARM adds atomic-level functional group annotations to create FG-enhanced SMILES and FG graphs, trains them with masked language modeling and GNNs plus contrastive alignment, and reports state-of-the-art results on 8 of 13 MoleculeNet tasks.