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  • Massachusetts Institute of Technology

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kentoabeywardane/README.md

👋 Hi, I'm Kento Abeywardane

I'm a Chemical Engineering and Computing PhD student at MIT currently in the Coley Research Group working on 3D generative drug design. Previously, I graduated with a Master's in Data-Enabled Computational Engineering and Sciences (DECES) and a Bachelor's in Chemical Engineering at Brown University where I worked in the Goldsmith Lab for Chemical Kinetics. My master's thesis was a culmination of my undergraduate DFT and coupled cluster work with PFOA and GenX compounds where I developed a package ($\texttt{autoCBH}$) that automatically computes accurate heats of formation for large molecules by utilizing the error-cancelling connectivity-based hierarchy (CBH) method. In the Ault Fluids Lab I worked on non-equillibrium MD simulations to investigate diffusiophoresis of proteins and how that may impact transport, stability, and function.
  • 🌱 My technical interests:

    • Deep Learning with a focus in 3D and equivariance
    • Quantum Chemistry Software
    • Molecular Dynamics and Mechanics
  • 📫 Reach me at: kento@mit.edu

Connect with me:

kentoabeywardane Kento Twitter


Here are some projects that I've worked on:

ShEPhERD

$\textit{ShEPhERD}$: Diffusing Shape, Electrostatics, and Pharmacophores for Bioisosteric Drug Design

ShEPhERD-score

$\textit{ShEPhERD}$-score: Interaction Profile Extraction and 3D Similarity Scoring

Automated CBH Scheme

$\texttt{autoCBH}$: Automated Connectivity-Based Hierarchy (CBH) Schema Generation and ∆Hf Calculation

SBINN

Physics-Informed Neural Networks (PINNs) to predict parameters of a Glucose-Insulin interaction ODE model (SBINNs)

Protein Diffusiophoresis

Protein Diffusiophoresis with Molecular Dynamics

Style transfer model Generated image results

Generation of Diverse Image Data Using Style Transfer (Deep Learning) to Debias Melanoma Classification Models

2D Flow Through Reactor with Catalytic Chemistry

2D Flow Through Reactor with Catalytic Chemistry

COVID-19: Modeling In-Host Viral and Innate Immune System Dynamics

COVID-19: Modeling In-Host Viral and Innate Immune System Dynamics

Saturated, Superheated and Compressed Water Property Calculator GUI

Steam Table Calculator


Languages and Tools:

matlab comsol matlab matlab molpro openmm matlab pandas python python scikit_learn seaborn tensorflow

Pinned Loading

  1. franklingoldsmith/autocbh franklingoldsmith/autocbh Public

    Automated generation of Connectivity-Based Hierarchies (CBH) for selected molecules.

    Python 1