Blerina Sinaimeri

Fox: Predicting rates of host-symbiont co-evolution events with association-aware attention

Fox predicts host-symbiont co-evolution event rates directly from sequence alignments without tree reconstruction, achieving high accuracy and speed compared to existing methods.

Cophylogeny simulators are not interchangeable: similarities, differences and structural biases in synthetic host-symbiont

The paper analyzes cophylogeny simulators to compare their assumptions and structural biases in generating synthetic host-symbiont data.

Comparing the ability of embedding methods on metabolic hypergraphs for capturing taxonomy-based features

The paper evaluates hypergraph embedding methods for clustering metabolic hypergraphs to capture taxonomy-based features, finding that certain methods outperform others.