Parham Haddadi

Clinical Trial and Ontology-Derived Positive and Negative Benchmark Datasets for Drug Repurposing Across Rare Diseases

The paper introduces two benchmark datasets for drug repurposing across rare diseases: a positive dataset from clinical trials and a negative dataset from disease ontologies, enabling evaluation of computational models for disease-drug associations.

Topology-Driven Negative Sampling Enhances Generalizability in Protein-Protein Interaction Prediction

This paper introduces a method to improve protein-protein interaction prediction by using topology-driven negative sampling and an ML pipeline that enhances generalizability and interpretability.

Representation Learning of Human Diseases for Indication Expansion and Investment Decisions

This paper introduces Dis2Vec, a representation learning framework for human diseases that enables therapeutic transferability prediction and disease clustering, enhancing translational research efficiency.

Two independent approaches converge to the cloning of a new Leptosphaeria maculans avirulence effector gene, AvrLmS-Lep2

The paper clones a new avirulence gene, AvrLmS-Lep2, using two independent methods and confirms its role in inducing resistance in Brassica napus.

The complex genetic architecture of shoot growth natural variation in Arabidopsis thaliana

The paper investigates the genetic architecture of shoot growth variation in Arabidopsis thaliana using QTL mapping and high-throughput phenotyping, revealing complex and dynamic genetic structures.