Mohammadsadeq Mottaqi

GEM-GPT Enables Personalized Cell Type-Resolved Therapeutic Design for Systems Pharmacology

GEM-GPT generates personalized therapeutic molecules to shift cell-type-specific disease states toward healthy phenotypes, outperforming baselines in chemical perturbation and CRISPR experiments.

A Scalable Sign-Aware Multi-Omics Knowledge Graph Foundation Model for Mechanistic Drug Action and Clinical Response Predictions

This paper introduces a signed multi-omics knowledge graph foundation model for drug action and clinical response predictions, achieving high accuracy and efficiency.

DrugPTM-Bench: A Large-Scale Dataset for Predictive Modeling of Drug-Induced Cell Type-Specific Protein Post-Translational Modifications

DrugPTM-Bench provides a large-scale phosphoproteomics dataset for modeling drug-induced PTM regulation, highlighting challenges in imbalanced classification and enabling multi-task predictive tasks.

Integrating explainable AI with multiomics systems biology and EHR data mining for personalized drug repurposing in Alzheimer's disease

PRISM-ML integrates multi-omics and EHR data to identify drug repurposing opportunities in Alzheimer's disease by analyzing molecular heterogeneity and predicting therapeutic targets.