I am interested in using molecular dynamics simulations to accurately simulate protein conformational dynamics and protein-ligand interactions. My current goal is to test multiple MD based techniques to refine ligand conformations initially generated via a faster (though less accurate) virtual screening. My hope is that my work will aid in future drug discovery and optimization. (Simmerling lab)

Program: PhD, Chemistry, SBU

My research focuses on using molecular dynamics simulations to investigate bacterial pili synthesised through the chaperone-usher pathway. (Simmerling lab)

Program: PhD, Chemistry at Stony Brook University

My research interest lies in the application of molecular-scaled simulations to the real-world issues that biology can solve. (Kozakov lab)

Program: PhD, Applied Mathematics and Statistics at Stony Brook University

I completed my bachelor’s degree at the University of Tehran and my Master of Biochemistry at Tarbiat Modares University. Currently, I am working on developing high-throughput methods for display-free selection of linear and circular peptides. My favorite scientist is Rick Sanchez from dimension C-137. (Serebryany lab)

Program: PhD, Biochem & Structural Biology at SBU

I study breast cancer using 3D organoid models to investigate how gene expression dynamics, particularly BACH1 and RKIP, shape cancer cell phenotypes and invasiveness. By leveraging synthetic biology, I aim to uncover regulatory mechanisms driving metastasis and chemoresistance, and apply them as research tools or new therapeutic strategies. (Balázsi lab)

Program: PhD, Biomed Eng, SBU

My work is focused on quantitative and computational approaches to neuroimaging, and multi-scale modeling of neurobiological processes. I am interested in modeling cerebral metabolic dysfunction and applications to diagnostic biomarkers that appear in early states of pathology. (Mujica-Parodi lab)

Program: PhD, Biomed Eng & MSTP Renaissance School of Medicine

I am interested in improving methods of computational biophysics. We are developing a MELD-accelerated approach to finding reaction coordinates for biomolecule conformational changes. And, I'm working on physical modeling of protein-protein interactions, particularly including antibodies.

I develop algorithms for modeling molecular interactions and liquid phase separation. My broader interest lies in mathematical modeling. (Kozakov lab)

Program: PhD, Applied Mathematics and Statistics at Stony Brook University

I am interested in how cellular interactions can lead to and modulate cellular phenotypes, such as proliferation and motility. By combining synthetic biology approaches with computational modeling, I aim to develop a more predictive and quantitative understanding of these phenomena. (Balázsi lab)

Program: PhD, Biomed Engineering at SBU

I develop efficient methods for modeling protein-protein, protein-small molecule interactions, and PROTAC ternary complexes. I also combine these methods with statistical physics tools to simulate the phase behavior of protein solutions. (Kozakov lab) | Citations

Program: PhD, Applied Mathematics and Statistics at Stony Brook University

To enhance precision in medicine, my current study focuses on allosteric regulation of protein function. I aim to accelerate drug discovery by taking advantage of computationally derived structural and dynamic information and translate experimental data into personalized medicine. (Bahar lab)

Program: MSTP Renaissance School of Medicine; PhD, Chem

I am working on PROTAC modeling and design, structural biology and biochemistry, trying to answer questions about PROTACS mechanistics, to increase their specificity, and find new application systems. At the same time, I am developing a method for discovering molecular glue degraders. (Kozakov lab)

Program: PhD, Applied Mathematics and Statistics, Comp Biology Track at SBU

My research interests involve using the structure and dynamics of proteins to understand their functions. It also includes bioinformatic and machine learning techniques to gain insight into biological systems and find potential drug targets. (Bahar lab)

Program: PhD, Molecular and Cellular Pharmacology at Stony Brook University

I am interested in studying protein structure and protein dynamics. Specifically, I employ ProDy tools to examine protein movement, protein conformation, and protein orthosteric/allosteric binding site. (Bahar lab)

Program: PhD, Biochemistry and Structural Biology at Stony Brook University

My research interests broadly include structure-based drug design and molecular modeling. With enhanced biophysics understanding of the mechanisms underlying biomedically relevant processes, I am interested in expediting the development of novel therapeutics. (Bahar lab)

Program: PhD, Biochemistry and Structural Biology and Stony Brook University

My research focuses on cataracts and gamma crystallins, which, due to high cysteine content, form non-native disulfide bonds and aggregates that contribute to cataract development. I conduct biophysical experiments on gamma-D crystallin variants to assess their stability and response to environmental stress, to better understand cataract formation and develop preventive strategies. (Serebryany lab)

Program: PhD, Chemistry, SBU

My research delves into unraveling the molecular intricacies of protein-protein and -drug interactions, using advanced computational techniques such as coevolution analysis, docking and MD simulations, ENMs, and drug discovery methods. I am passionate about predicting complex structures and exploring novel avenues for therapeutic interventions. (Bahar lab)

Program: PhD, Bioche & Struct Biol

I am a Ph.D. student in the Chemistry Ph.D. program, a an IMSD Merge scholar and Turner fellow. I develop and use computational chemistry methods to help aid in drug discovery and development for diseases, unravel the intricate dynamics of proteins, and understand their mechanisms of action. (Bahar lab)

Program: PhD, Chemistry at Stony Brook University

My work is on developing deep learning AlphaFold2-based models for binding and structure prediction of MHC complexes. (Kozakov lab)

Program: PhD, Computer Science at Stony Brook University

I am interested in understanding the mechanisms of cancer drug resistance and exploring novel strategies, such as triplex-forming-oligonucleotides, to help overcome it.
(Balazsi_Lab)

Program: Ph.D, Biomedical Engineering at Stony Brook University.

I am interested in dynamics at both the large and small biological scales. Currently I'm developing theoretical and computational models to explore fundamental evolutionary dynamics in relation to fitness, as well as analyzing gene expression and oncogene amplification.
(Balazsi_Lab)

Program: PhD, Physics & Astronomy at Stony Brook University

I develop and validate more efficient methods for simulating biomolecules. Currently I'm working on applying structure reservoirs to improve the efficiency of replica exchange molecular dynamics methods in Amber. (Simmerling lab)

Program: PhD, Chemistry at Stony Brook University

I'm working on algorithms that improve water simulation in molecular dynamics models, specifically with CageWater. I'm also interested in computing molecular symmetries, solving ring shapes, and anything else at the intersection of geometry and physics. (Coutsias)

Program: PhD, Applied Mathematics at Stony Brook University.

My research focuses on understanding the biophysical adaptations of primate γ-crystallins and how evolutionary sequence variations influence their stability, folding, and aggregation behavior. By comparing γ-crystallins across different primate species, I investigate how subtle changes in protein sequence contribute to structural stability and long-term maintenance of transparency in the eye lens. (Serebryany lab)

Program: Ph.D, Molecular cell biology department (MCB) at Stony Brook University.

I completed my Bachelor’s degree in Chemistry from Stetson University. My current research focuses on developing and engineering the chemical photocyclization of peptides. I am also involved in investigating the biophysics of lens gamma-crystallins and protein engineering against protein-protein interactions in cancer. (Serebryany lab)

Program: Ph.D Chemistry at Stony Brook University.

My research focuses on developing better implicit water models for biomolecular simulations. (Simmerling lab)

Program: PhD, Chemistry at Stony Brook University