Akhilesh Ramachandran

LSTM-Based Methods for RNA-RNA Interaction Prediction.

Transformer-Based Architectures for RNA-RNA Interaction Prediction.

This chapter provides a comprehensive overview of Transformer-based models for RRI prediction, including RNABERT and biomedical adaptations of BERT, discusses RNA-specific tokenization and pretraining strategies, and examines fine-tuning approaches for interaction prediction tasks.

HyperTaxa: Multiscale Genome Representations for Generalized Microbial Taxonomic Inference

Reliable microbial taxonomic inference is challenged by the rapid growth of newly sequenced organisms and incomplete reference coverage. While alignment- and database-driven tools remain essential for reference-backed identification, they are not designed for learned inference over species absent from genome-level trai...