Isfahan University of Medical Sciences

Science Communicator Platform

Faculty Members have conducted research related to the Enhancing Drug Repositioning: A Multi-Class Ensemble Model for Drug-Target Interaction Prediction With Action Type Categorization
Yousof Gheisari
Yousof Gheisari

Associate Professor of Biologic Products

Department of Genetics and Molecular Biology, School of Medicine

Regenerative Medicine Research Center

Isfahan University of Medical Sciences

All Documents
1. Drugreasoner: Interpretable Drug Approval Prediction With a Reasoning-Augmented Language Model, PLOS ONE (2026)
2. Metabolomics Analysis of Diabetic Kidney Disease for Discovering Early Diagnostic Biomarkers: A Systematic Review and Meta-Analysis of Prospective Studies, Metabolism: Clinical and Experimental (2026)
3. Druggen Enhances Drug Discovery With Large Language Models and Reinforcement Learning, Scientific Reports (2025)
4. Drugtar Improves Druggability Prediction by Integrating Large Language Models and Gene Ontologies, Bioinformatics (2025)
5. Generative Artificial Intelligence: In the Search for New Landscapes in Basic and Clinical Nephrology, Journal of Research in Medical Sciences (2025)
6. Transcriptome Meta-Analysis and Validation to Discovery of Hub Genes and Pathways in Focal and Segmental Glomerulosclerosis, BMC Nephrology (2024)
7. A Novel Strategy for Dynamic Modeling of Genome-Scale Interaction Networks, Bioinformatics (2023)
8. Candidate Microrna Biomarkers in Lupus Nephritis: A Meta-Analysis of Profiling Studies in Kidney, Blood and Urine Samples, Molecular Diagnosis and Therapy (2023)
9. Identification of Key Genes and Biological Regulatory Mechanisms in Diabetic Nephropathy: Meta-Analysis of Gene Expression Datasets; [Identificacion De Genes Clave Y Mecanismos Reguladores Biologicos En La Nefropatia Diabetica: Metaanalisis De Conjuntos De Datos De Expresion Genica], Nefrologia (2023)
10. Mir-802-5P Is a Key Regulator in Diabetic Kidney Disease, Journal of Research in Medical Sciences (2023)
11. Proteomics to Metabolomics: A New Insight Into the Pathogenesis of Hypertensive Nephropathy, Kidney and Blood Pressure Research (2023)
12. Regenerative Potential of Multinucleated Cells: Bone Marrow Adiponectin-Positive Multinucleated Cells Take the Lead, Stem Cell Research and Therapy (2023)
13. Regenerative Potential of Multinucleated Cells: Bone Marrow Adiponectin-Positive Multinucleated Cells Take the Lead, Stem Cell Research and Therapy (2023)
14. The Potential of Cardiac Biomarkers, Nt-Probnp and Troponin T, in Predicting the Progression of Nephropathy in Diabetic Patients: A Meta‐Analysis of Prospective Cohort Studies, Diabetes Research and Clinical Practice (2023)
15. Zoledronic Acid Targets Chemo-Resistant Polyploid Giant Cancer Cells, Scientific Reports (2023)
16. A Deep Learning Approach to Predict Inter-Omics Interactions in Multi-Layer Networks, BMC Bioinformatics (2022)
17. Circulating Β2 and Α1 Microglobulins Predict Progression of Nephropathy in Diabetic Patients: A Meta‐Analysis of Prospective Cohort Studies, Acta Diabetologica (2022)
18. Discovering Driver Nodes in Chronic Kidney Disease-Related Networks Using Trader As a Newly Developed Algorithm, Computers in Biology and Medicine (2022)
19. Olfactory Receptors Contribute to Progression of Kidney Fibrosis, npj Systems Biology and Applications (2022)
20. A Nurturing Environment for Teaching Molecular Biology to Medical Students, Journal of Education and Health Promotion (2021)
21. Comprehensive Analysis of Iga Nephropathy Expression Profiles: Identification of Potential Biomarkers and Therapeutic Agents, BMC Nephrology (2021)
22. Effect of Melatonin Supplementation on Endothelial Function in Heart Failure With Reduced Ejection Fraction: A Randomized, Double-Blinded Clinical Trial, Clinical Cardiology (2021)
23. Inefficiency of Sir Models in Forecasting Covid-19 Epidemic: A Case Study of Isfahan, Scientific Reports (2021)
24. Non-Invasive Metabolic Biomarkers for Early Diagnosis of Diabetic Nephropathy: Meta-Analysis of Profiling Metabolomics Studies, Nutrition, Metabolism and Cardiovascular Diseases (2021)
25. Optimization of Mouse-On-Mouse Immunohistochemistry by Utilizing Fluorescent-Dye Conjugated Secondary Anti-Mouse Antibody, Applied Immunohistochemistry and Molecular Morphology (2021)
26. Systems Biology and Machine Learning Approaches Identify Drug Targets in Diabetic Nephropathy, Scientific Reports (2021)
27. Transmembrane Signaling Molecules Play a Key Role in the Pathogenesis of Iga Nephropathy: A Weighted Gene Co-Expression Network Analysis Study, BMC Immunology (2021)
28. A Systematic Integrative Approach Reveals Novel Micrornas in Diabetic Nephropathy, Journal of Research in Medical Sciences (2020)
29. Bifurcation Analysis of a Modular Model of Embryonic Kidney Development, BioSystems (2020)
30. Cancer Regeneration: Polyploid Cells Are the Key Drivers of Tumor Progression, Biochimica et Biophysica Acta - Reviews on Cancer (2020)
31. Cancer Regeneration: Polyploid Cells Are the Key Drivers of Tumor Progression, Biochimica et Biophysica Acta - Reviews on Cancer (2020)
32. Effect of Melatonin on Heart Failure: Design for a Double-Blinded Randomized Clinical Trial, ESC Heart Failure (2020)
33. Evaluating the Effect of Remote Ischemic Preconditioning on Kidney Ischemia-Reperfusion Injury, Journal of Research in Medical Sciences (2020)
34. In Vitro Versus in Vivo Models of Kidney Fibrosis: Time-Course Experimental Design Is Crucial to Avoid Misinterpretations of Gene Expression Data, Journal of Research in Medical Sciences (2020)
35. Valproic Acid Restores the Down-Regulation of Sdf-1 Following Kidney Ischemia; Experimental Validation of a Mathematical Prediction, Research in Pharmaceutical Sciences (2020)
36. Agent-Based Modeling and Bifurcation Analysis Reveal Mechanisms of Macrophage Polarization and Phenotype Pattern Distribution, Scientific Reports (2019)
37. Analysis of Time-Course Microarray Data: Comparison of Common Tools, Genomics (2019)
38. Big Data to Knowledge: Common Pitfalls in Transcriptomics Data Analysis and Representation, RNA Biology (2019)
39. The Analysis of a Time-Course Transcriptome Profile by Systems Biology Approaches Reveals Key Molecular Processes in Acute Kidney Injury, Journal of Research in Medical Sciences (2019)
40. Transcriptional Noise in Intact and Tgf-Beta Treated Human Kidney Cells; the Importance of Time-Series Designs, Cell Biology International (2018)
41. Heterozygosity Analysis of Polycystic Kidney Disease 1 Gene Microsatellite Markers for Linkage Analysis of Autosomal Dominant Polycystic Kidney Disease Type 1 in the Iranian Population, Journal of Research in Medical Sciences (2017)
42. A Three-Dimensional Scaffold-Based System for Modeling the Bone Marrow Tissue, Stem Cells and Development (2016)
43. Central Nodes in Protein Interaction Networks Drive Critical Functions in Transforming Growth Factor Beta-1 Stimulated Kidney Cells, Cell Journal (2016)
44. Mesenchymal Stem Cells and Endothelial Cells: A Common Ancestor?, Archives of Iranian Medicine (2016)
45. Stochastic Petri Net Modeling of Hypoxia Pathway Predicts a Novel Incoherent Feed-Forward Loop Controlling Sdf-1 Expression in Acute Kidney Injury, IEEE Transactions on Nanobioscience (2016)
46. Stochastic Petri Net Modeling of Hypoxia Pathway Predicts a Novel Incoherent Feed-Forward Loop Controlling Sdf-1 Expression in Acute Kidney Injury, IEEE Transactions on Nanobioscience (2016)
47. Modeling and Controlling Tgf-P Pathway Using Standard Petri Nets, ICEE 2015 - Proceedings of the 23rd Iranian Conference on Electrical Engineering (2015)
48. Nodes With High Centrality in Protein Interaction Networks Are Responsible for Driving Signaling Pathways in Diabetic Nephropathy, PeerJ (2015)
49. Intra-Renal Arterial Injection of Autologous Bone Marrow Mesenchymal Stromal Cells Ameliorates Cisplatin-Induced Acute Kidney Injury in a Rhesus Macaque Mulatta Monkey Model, Cytotherapy (2014)
50. Effect of L-Arginine on Circulating Endothelial Progenitor Cells in Hypercholesterolemic Rabbits, International Journal of Cardiology (2010)
51. Multipotent Mesenchymal Stromal Cells: Optimization and Comparison of Five Cationic Polymer-Based Gene Delivery Methods, Cytotherapy (2008)