Eugene Klyshko

Eugene Klyshko

Computational biophysicist et al.

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A list of all the posts and pages found on the site. For you robots out there is an XML version available for digesting as well.

Pages

Posts

Future Blog Post

less than 1 minute read

Published:

This post will show up by default. To disable scheduling of future posts, edit config.yml and set future: false. Read more

Blog Post number 4

less than 1 minute read

Published:

This is a sample blog post. Lorem ipsum I can’t remember the rest of lorem ipsum and don’t have an internet connection right now. Testing testing testing this blog post. Blog posts are cool. Read more

Blog Post number 3

less than 1 minute read

Published:

This is a sample blog post. Lorem ipsum I can’t remember the rest of lorem ipsum and don’t have an internet connection right now. Testing testing testing this blog post. Blog posts are cool. Read more

Blog Post number 2

less than 1 minute read

Published:

This is a sample blog post. Lorem ipsum I can’t remember the rest of lorem ipsum and don’t have an internet connection right now. Testing testing testing this blog post. Blog posts are cool. Read more

Blog Post number 1

less than 1 minute read

Published:

This is a sample blog post. Lorem ipsum I can’t remember the rest of lorem ipsum and don’t have an internet connection right now. Testing testing testing this blog post. Blog posts are cool. Read more

portfolio

publications

MADDY model: Exploring dynamic instability and identifying features of Microtubules’ Growth, Catastrophe, Shortening, and Rescue

Published in Computational and Structural Biotechnology Journal, 2022

The paper describing a computational model of microtubule dynamics Read more

Recommended citation: Evgenii Kliuchnikov, Eugene Klyshko, Maria S. Kelly, Artem Zhmurov, Ruxandra I. Dima, Kenneth A. Marx, Valeri Barsegov (2022). "Microtubule assembly and disassembly dynamics model: Exploring dynamic instability and identifying features of Microtubules’ Growth, Catastrophe, Shortening, and Rescue." Computational and Structural Biotechnology Journal. 20(1). /files/maddy.pdf

Functional protein dynamics in a crystal

Published in Nature Communications, 2024

Characterizing protein dynamics in the crystalline state Read more

Recommended citation: Klyshko E, Kim JS-H, McGough L, Valeeva V, Lee E, Ranganathan R, Rauscher S (2024) "Functional protein dynamics in a crystal." Nature Communications 15(1):3244 /files/efx.pdf

talks

Chemical Biophysics Symposium 2018

Published:

The Chemical Biophysics Symposium (CBP) is a student-organized conference, which provides an informal venue for discussions on some of the most intriguing topics at the interface of chemistry, biology, and physics. Past symposia have been marked by a strong multi-disciplinary turnout and a reputation for lively debates, panel discussions, and question periods, not to mention lavish banquets and stellar lineups of noteworthy and engaging speakers. Read more

Biophysical Society Annual Meeting 2019

Published:

As science becomes increasingly interdisciplinary, the Biophysical Society Annual Meeting continues its long-held reputation for bringing together leading scientists from the all over the world who work at the interface of the life, physical, and computational sciences. The dynamic five-day Meeting provides attendees with opportunities to share their latest unpublished findings and learn the newest emerging techniques and applications. More information about the conference here Read more

Physics and AI Workshop at McGill

Published:

At the two-day workshop I presented my poster Defining conformational states of proteins using dimensionality reduction and clustering algorithms - the same one from BPS 2019. Read more

International High Performance Computing Summer School 2019

Published:

I participated in the IHPCSS 2019 that took place in RIKEN Centre, Kobe, Japan on July 7 - 12. The main purpose of the summer school was to familiarize students with major state-of-the-art aspects of HPC for a variety of scientific disciplines, catalyze the formation of networks, provide advanced mentoring and facilitate international exchange. One of the activities was to present your own research to other 80 participants, mostly PhD students and Postdocs, from Canada, USA, Europe and Japan. Read more

Biophysical Society Annual Meeting 2020

Published:

As science becomes increasingly interdisciplinary, the Biophysical Society Annual Meeting continues its long-held reputation for bringing together leading scientists from the all over the world who work at the interface of the life, physical, and computational sciences. The dynamic five-day Meeting provides attendees with opportunities to share their latest unpublished findings and learn the newest emerging techniques and applications. More information about the conference here Read more

teaching

Signal Processing in Python

Graduate course lecture, University of Toronto Missisauga, Department of Chemical and Physical Sciences, 2019

The Jupyter Notebook can be found on github. This practical includes processing of digital signals using Fast Fourier Transform. This may sound boring at first, but you will have some fun today before reading week… Read more

Introduction to Machine Learning in Python

Graduate course lecture, University of Toronto Missisauga, Department of Chemical and Physical Sciences, 2019

These lecture and practical are created for CPS Teaching Fellowship where we introduce a novel approach to study advanced scientific programming. The goal of the lecture is to introduce Machine Learning (ML) tools and how to use them for Molecular Dynamics simulations in Python programmming language. We will use a lot of numpy functions and a few of new modules, such as sklearn for dimensionality reduction. Lecture on github Read more