Antisense oligonucleotides (ASOs) are a promising class of therapeutic agents capable of selectively modulating gene expression and treating a wide range of genetic and neurological disorders. Accurate prediction of ASO efficacy is essential for acce... read more
Pathway enrichment of omics data requires careful interpretation, and LLM-PathwayCurator transforms enrichment outputs into auditable, evidence-linked claims with redundancy-highlighting module mapping. Across seven cohorts from The Cancer Genome Atl... read more
Predicting cellular responses to genetic or chemical perturbations has been a long-standing goal in biology. Recent applications of foundation models to this task have yielded contradictory results regarding their superiority over simple baselines. W... read more
The brain faces the feature binding problem: how are multiple stimulus features and variables combined into coherent representations that support flexible behavior? A key finding from neuroscience is that some brain regions employ factorized represen... read more
The role of intragenic cytosine methylation in shaping phenotypes has been contentious. Recent studies show association between stress and alternative splicing of transcripts, but without functional genome-wide or single-position analysis. We utilize... read more
Alternative splicing is a core determinant of cell-type-specific gene expression in humans, and its dysregulation contributes to many diseases including neurodegeneration, autoimmunity, and cancer. However, current deep learning models for predicting... read more
The growing availability and complexity of omics data have driven the development of specialized algorithms for modeling molecular systems. Although graph-based learning methods effectively represent biological interactions, they often neglect the st... read more
The rapid scaling of Genomic Foundation Models (GFMs) has created a critical need for standardized evaluation frameworks. Current benchmarking practices are often fragmented, relying on model-specific preprocessing and inconsistent metric implementat... read more
We examine whether research systems reallocate scientific effort as health needs change. We assemble a global disease-location panel for 204 countries and territories (1990-2021) by linking disease-specific publication output to disease burden in the... read more
Biomedical research relies on scientifically validated tools to assess pain, suffering, and distress in laboratory animals to ensure their well-being. In mice, the most frequently used laboratory animals, the Mouse Grimace Scale (MGS) provides a reli... read more
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