Laufer Center 2017 Spring Retreat

 

 

April 24, 2017
The Old Field Club 
86 West Meadow Road 
East Setauket, New York, 11733 
631-751-0571 
8:30 AM – 6:30 PM


2017-retreat-IMG 0375


 

Check-in & Continental Breakfast 8:30 – 9:15

Morning Session 9:30 – 12:05

 

9:30 - Dr. Ken A. Dill, Opening remarks and Center Overview

9:45 - Drs. Sasha Levy & Gábor Balázsi, Introductions

10:00 – Helmut Strey, Ph.D.

Professor, Department of Biomedical Engineering, Stony Brook University

Bayesian Analysis of Time Series

 

10:20 – Avi Srivastava, student (advisor: Dr. Rob Patro)

Recent advances in analysis efficient transcriptome based computations

 

10:40 – Sasha F. Levy, Ph.D.

Assistant Professor, Laufer Center for Physical & Quantitative Biology

The dynamics of genetic diversity during the early stages of clonal evolution

 

1:00 - Michael Cortes, student (advisor: Dr. Gábor Balázsi)

Ecological factors influencing cell fate decisions

 

11:20 – Flaminia Taloş, M.D., Ph.D.

Assistant Professor, Departments of Urology and Pathology, Stony Brook Medical Center

Clonal evolution in mouse models of prostate cancer

 

Lunch 12:05 - 1:00

Afternoon Session 1:15 - 3:20

 

1:15 – Molly Gale Hammell, Ph.D.

Assistant Professor, Cold Spring Harbor Laboratory

Identifying Therapy Resistant Melanoma Cells with SAKE Single Cell Analysis

 

2:00 – Adam de Graff, Jr Fellow (advisor: Dr. Ken Dill)

Postdoctoral Fellow, Laufer Center for Physical & Quantitative Biology

Proteostasis in aging: It's just a matter of time

 

2:20 – Eric Brouzes, Ph.D.

Assistant Professor, Department of Biomedical Engineering, Stony Brook University

Technologies for single-cell analysis

 

2:40 – Junjie Zou, student (co-advisors: Dr. Dan Raleigh & Dr. Carlos Simmerling)

Experimental and Computational Analysis of Protein Stabilization by Gly-to-d-Ala Substitution

 

3:00 – Dima Kozakov, Ph.D.

Assistant Professor, Department of Applied Math and Statistics, Stony Brook University

Fast Flexible Docking using Generalized Fourier Transforms on Rotational Manifolds

 

3:20 – 4:00 Coffee Break;

Laufer Center Self-Evaluation (Faculty);

Free Time & Poster Set-up (Students & Postdocs)

Reception & Poster Session 4:00 – 5:30

Poster presenters should be available to answer questions

Pizza dinner 5:30 – 6:30

 

  

Poster Presentations

 

 PresenterAdvisorTitle
1 Emiliano Brini Dill MELD: Free Energy Based Protein Structure Prediction
2 Jason Wagoner Dill Molecular Motors are Optimized for Thermodynamic Performance
3 Alberto Perez Dill Relative binding free energies from flexible peptide binding simulations
4 Kellon Belfon Simmerling Targeting a partial dissociated state of retroviral proteases
5 Kevin Farquhar& Daniel Charlebois Balazsi Role of Stochasticity in Mammalian Drug Resistance
6 Lauren Prentis Rizzo Computational De novo Drug Design Applications to HIV gp41 and FABP
7 Jiaye Guo Rizzo A Computational Approach to Identify and Displace Bridging Water Molecules in Drug Refinement
8 Dzmitry Padhorny Kozakov FFT protein docking on 5D rotational manifolds
9 Chuan Tian Simmerling How do we improve protein simulations with a better physics model?
10 Agnes Huang Simmerling Fast approach for non-polar solvation term in continuum solvent MD simulations
11 Yuchen Zhou Rizzo Computer-aided Inhibitor Development Against Fatty Acid Binding Protein 5
12 Kenneth Lam Simmerling Large scale RNA simulations - the challenges we face
13 Courtney Singleton Rizzo Application of a Genetic Algorithm for DOCK6 to Aid in De Novo Design
14 Dwight McGee Rizzo Computational Approaches to Identify Small Molecules that Target HIVgp41
15 Tamas Szekely Balazsi Evolution of cellular memory in bet-hedging microbes
16 Roy Nassar Dill Enhancing Protein Folding with Informative Restraints
17 Fangfei Li Levy Evolutionary dynamics of two-step beneficial mutations via a double-barcoding system
18 Xianan Liu Levy Quantitative evolutionary dynamics of a large number of yeast segregants
19 Mosavverul Hassan Coutsias TBA
20 Mariola Szenk Balazsi TBA