Past Seminars

2024

SpeakerAffiliationTitleDate
Gabriel Rocklin

Rocklin

Northwestern University High-throughput discovery of protein folding stability and dynamics
Abstract Video
2/16
Sruti Shiva

Rocklin

University of Pittsburgh Platelet Bioenergetics: from marker to mechanism in vascular disease
Abstract Video
1/26

2023

SpeakerAffiliationTitleDate

Ken Dill

Ken Dill

Laufer Center, Stony Brook University Career skills for PhD scientists
Abstract Video
11/16

Jean-Pierre Vilardaga

Mike Harms

University of Pittsburgh Location bias in GPCR signaling
Abstract Video
10/27

Mike Harms

Mike Harms

University of Oregon The evolution of kicking and screaming stochastic proteins
Abstract Video
9/22

Karolina Mikulska-Rumińska

karolina

Nicolaus Copernicus University How to avoid cell death by lipid peroxidation? Unraveling molecular mechanisms and inhibition of ferroptosis.
Abstract Video
6/2

Alberto Perez

alberto4web2

University of Florida Modeling molecular recognition in flexible systems
Abstract Video
5/19
Nina Luning Prak University of Pennsylvania Creating an atlas of B cell clones in health and disease
Abstract Video
5/12
Max Staller University of California at Berkeley Evolution of transcriptional activation domains
Abstract Video
5/5
Qing Yu Harvard University Unlocking the secrets of complex proteomes and molecular phenotypes
Abstract Video
5/1

Eugene Serebryany

Serebryany

Harvard University Exploring and engineering the biological consequences of non-native protein conformations via single-molecule deep sequencing of polypeptides
Abstract Video
4/26
Simon Kretschmer University of California, San Francisco Engineering protein-based switches for synthetic biology
Abstract Video
4/24
Lina Carlini Rockefeller University Mesoscale Mechanics of the Mitotic Spindle
Abstract Video
3/30
Sonali Chaturvedi University of California, San Francisco Antivirals with high genetic barriers to the evolution of resistance
Abstract Video
3/20
Ilya Vakser The University of Kansas Docking-based simulation of cell-size protein systems
Abstract Video
3/3

2022

SpeakerAffiliationTitleDate
Marc Kirschner Harvard Medical School Imputing cell circuitry from quantitative pharmacological perturbation, mass spectrometry, and machine learning
Abstract Video
3/25
Marc Kirschner Harvard Medical School How cells control their size
Abstract Video
3/24
Karmella Haynes Emory University School of Medicine Atlanta, GA Epigenetic Actuation: Engineered Chromatin Reader-Effectors for Gene Regulation in Cancer
Abstract Video
2/16

2021

SpeakerAffiliationTitleDate
Gregory Chirikjian National University of Singapore  Entropy, Lie Groups, and Structural Biology
Abstract Video 
 12/14
Kateri H. DuBay University of Virginia On the Collective Behaviors of Oligomers: Implications for Self-Assembled Monolayers and Copolymer Sequences
Abstract Video
12/10
Yinglong Miao   University of Kansas   Accelerated Biomolecular Simulations and Drug Discovery
Abstract Video
11/05 
David M. Truong   New York University   Programming Off-the-Shelf Human iPSCs using Genome Writing
Abstract Video
10/29 
Ed Boyden   MIT   Tools for Analyzing and Controlling Complex Biological Systems
Abstract Video
 10/22
Stephen Fried Johns Hopkins University Probing the Proteome’s Refoldability under Cellular-like Conditions with Mass Spectrometry
Abstract Video
09/24
Jordan H. F. McKittrick Cambridge University A Proposed Definition of Causal Information
Abstract Video
09/10
Pratyush Tiwary University of Maryland, College Park Can artificial intelligence help understand and predict molecular dynamics?
Abstract Video
06/04
Richard Bonneau NYU Integrating generative physical and deep learning approaches to navigate the structure-function-sequence triangle
Abstract Video
05/07
Roy Nassar & Ken Dill Laufer Center AlphaFold, and its recent successes in predicting protein structures in a blind competition called CASP
Abstract Video
04/29
John Chodera Memorial Sloan Kettering Cancer Center The COVID Moonshot: An open science collaboration to develop an orally bioavailable inhibitor of the SARS-CoV-2 main viral protease
Abstract Video
04/23
Bin Zhang MIT Phase Separation in Genome Organization
Abstract Video
04/16
Nathalie Q. Balaban The Hebrew University of Jerusalem Observation of universal dynamics in the recovery of single cells to stress
Abstract Video
04/01
Alexander van Oudenaarden  Hubrecht Institute,  Netherlands  Novel single-cell sequencing tools to explore cells in space and time
Abstract Video  
03/12 
Uri Alon Weizmann Institute of Science, Israel Mathematical essence of aging
Abstract  Video
02/05
Adrian Roitberg University of Florida Protein Simulations at constant pH. Sometimes a pKa is not a pKa
Abstract
01/28

2020

 

SpeakerAffiliationTitleDate
Margaret Cheung Rice University From Protein Folding in vitro to Hierarchical Assemblies in vivo
Abstract
12/04
Alexander Reyes NYU Mechanisms underlying control and propagation of signals in neural networks
Abstract
11/20
David Sivak Simon Fraser University Design principles of molecular machines: efficient control and functional internal coupling
Abstract
10/30
Pamela Silver Harvard Medical School Predictable design at the human interface
Abstract
10/28
Mani Larijjani Simons Fraser University Abstract 10/02
Vikram Mulligan Flatiron Institute Development of computational methods for rationally designing macrocyclic peptide therapeutics
Abstract
09/18
Steffen Lindert Ohio State University Computational Protein Structure Prediction from Mass Spectrometry Data
Abstract   Video   Flyer
02/28
Teun Hoevenaars Lund University, Sweden Linearization of Protein Loop Motion
Abstract   Video   Flyer
02/12

2019

 

SpeakerAffiliationTitleDate
Sander Tans AMOLF Amsterdam, The Netherlands Chaperone-guided folding of single proteins
Abstract   Video   Flyer
12/06
Tom Kurtzman Lehman College, Bronx, NY Exploiting active site solvation structure and thermodynamics for drug discovery and design
Abstract   Video   Flyer
11/22
Mark Goulian University of Pennsylvania Hedging bets in bacterial signal transduction
Abstract   Video   Flyer
11/08
Chao Tang Peking University Beijing, China Bacteria, stem cells and fruit flies: a physicist in biology
Abstract   Video   Flyer
10/11
Andriy Baumketner Institute for Condensed Matter Physics of the National Academy of Sciences of Ukraine Theoretical studies of protein aggregation
Abstract   Video   Flyer
09/13
Ron Zuckermann Lawrence Berkeley National Laboratory Berkeley, CA How to build atomically defined nanostructures from sequence-defined peptoid polymers
Abstract   Video   Flyer
09/12
Kingshuk Ghosh University of Denver, CO Theoretical polymer physics reveals hidden codes in protein sequences to alter disordered states
Abstract   Video   Flyer
07/22
Yibing Shan D. E. Shaw Research, NYC Structural modeling of large biomolecular assemblies--case studies on full-length JAK2 kinase and on Ras-Raf signalosome
Abstract   Video   Flyer
07/02
Huan-Xiang Zhou University of Illinois at Chicago Physical Basis of Protein Liquid-Liquid Phase Separation
Abstract   Video   Flyer
06/27
Yura Kalyuzhnyi National Academy of Sciences of Ukraine A brief introduction to Wertheim's multi-density theory for associating fluids
Abstract   Video   Flyer
05/31
Yura Kalyuzhnyi National Academy of Sciences of Ukraine Explicit-water theory for the salt-specific effects and Hofmeister series in protein solutions
Abstract   Video   Flyer
05/23
Naama Brenner Israel Institute of Technology Exploratory Adaptation in High-Dimensional Gene Expression Space
Abstract   Video   Flyer
05/17
Saeed Tavazoie Columbia University Gene regulation beyond the standard model: Adaptive reprogramming of gene expression by trial and error
Abstract   Video   Flyer
05/10
Eric R. May University of Connecticut Multiscale Modeling of Complex Systems and Processes Involving Peptides and Membranes
Abstract   Video   Flyer
05/03
Tanja Kortemme UCSF Computational design of reprogrammed and new protein functions
Abstract   Video   Flyer
04/19
Dave Thirumalai University of Texas at Austin Interphase Human Chromosome Exhibits Out of Equilibrium Glassy Dynamics
Abstract   Video   Flyer
03/15
Daron M. Standley Osaka University Integration of protein sequence and structural data for prediction of biological function
Abstract    Video   Flyer
03/08
Fyodor Kondrashov Institute of Science and Technology (IST), Austria How epistatic interactions shape the fitness landscape on a macroevolutionary scale
Abstract   Video   Flyer
02/25
Alhaji Cherif Renal Research Institute, NYC Age-specificity and Limited Epitopes: Heterogeneity of immunity shapes strain-structured epidemics of antigenically variable infectious diseases.
Abstract    Video    Flyer
02/11
Daniel Charlebois Stony Brook University Gene Networks and Drug Resistance: Breakthroughs Using Novel Model Systems
Abstract   Video   Flyer
01/03

2018

 

SpeakerAffiliationTitleDate
Adam P. Arkin UC Berkeley Discovery and Design of Genetic Factors for Microbial Function and Fitness in Complex Environments
Abstract   Video   Flyer
12/14
Bob Austin Princeton WORKSHOP: Physical Biology Meets Cancer
Cancer Tumors: The Ultimate Complex Adaptive Matter
Abstract   Video   Flyer
11/30
Sui Huang Institute for Systems Biology, Seattle WORKSHOP: Physical Biology Meets Cancer
From non-linear dynamics to single-cell transcriptomics of cell state transitions – Why Cancer Treatment Backfires…
Abstract   Video   Flyer
11/30
Marsha Rosner Univ of Chicago WORKSHOP: Physical Biology Meets Cancer
Rewiring Signaling Pathways in Cancer Cells
Abstract   Video   Flyer
11/30
Gabor Balazsi Laufer Center WORKSHOP: Physical Biology Meets Cancer
Control knobs, thresholds and cancer cell reprogramming
Abstract   Video   Flyer
11/30
Sri Iyer-Biswas Purdue University Emergent laws governing stochastic single-cell dynamics
Abstract   Video   Flyer
11/20
Chris A. Voigt MIT Genetic Circuit Design Automation
Abstract   Video   Flyer
11/19
Alexey Onufriev Virginia Tech The nucleosome: from structure to function through physics
Abstract   Video   Flyer
11/16
Sergei Grudinin CNRS, France Using Machine Learning and Integrative Approaches for Current Problems in Structural Biology
Abstract   Video   Flyer
11/13
Sebastian Fürthauer Flatiron Insitute, Simons Foundation The mechanical basis of spindle self-organization
Abstract   Video   Flyer
11/09
Claus Wilke University of Texas at Austin Structural and Functional Constraints on Protein Evolution
Abstract   Video   Flyer
10/19
David Huggins Cornell Medical School/Tri Institute Drug Discovery (NYC) Estimating Atomic Contributions To Small-Molecule Hydration And Protein-Ligand Binding Using Free-Energy Perturbation
Abstract   Video   Flyer
09/21
Lisa Tucker-Kellogg Duke-NUS Medical School in Singapore Evolution of Drug-Resistance in Cancer: Computational Modeling of Combination Treatment and the Dynamics of Cellular Subpopulations
Abstract   Video   Flyer
09/17
Adam De Graff Senior Scientist, Methuselah Health UK Ltd Proteostasis Collapse is a Driver of Cell Aging & Death
Abstract   Video   Flyer
08/30
Ora Schueler-Furman Hebrew University, Hadassah Medical School SMS (Short Motif Sequence) - mediated communication between proteins: structure-based characterization, modeling and manipulation
Abstract   Video   Flyer
08/24
Damien Hall Australian National University & Osaka University Physical biochemistry of amyloidosis disease
Abstract   Video   Flyer
08/20
Vincent Voelz Temple University, Philadelphia PA New Markov State Models approaches to folding, binding and design
How I became a systems biologist
Abstract  Video   Flyer
07/19
James E. Ferrell Stanford University Laufer Distinguished Lecturer (Lecture day 2)
How I became a systems biologist
Abstract   Video   Flyer
04/24
James E. Ferrell Stanford University Laufer Distinguished Lecturer (Lecture day 1)
Trigger waves in cell signaling
Abstract   Video   Flyer
04/23
Timothy Elston University of North Carolina Competition, coexistence and bistability in polarity establishment
Abstract   Video   Flyer
04/20
Michael L. Simpson University of Tennessee, Knoxville Footprints in the Noise: Understanding gene circuit structure and function by analyzing fluctuations in expression
Abstract   Video   Flyer
04/06
Huafeng Xu D. E. Shaw Research Cochaperones enable Hsp70 to fold proteins like a Maxwell's demon
Abstract   Video   Flyer
04/02
Steve Presse Arizona State University New Mathematics for New Biophysics: A Foray into Bayesian Nonparametrics
Abstract   Video   Flyer
03/19

2017

 

SpeakerAffiliationTitleDate
Ilya Nemenman Emory University Playing Newton: Learning equations of motion from data
Abstract   Video   Flyer
12/08
Sarah Rauscher University of Toronto, Canada Molecular Simulations of Intrinsically Disordered Proteins
Abstract   Video   Flyer
12/04
Simon Mochrie Yale Towards in-vivo biochemistry
Abstract   Video   Flyer
12/01
Sergey Ovchinnikov Harvard University Protein structure determination using metagenome sequence data
Abstract   Video   Flyer
11/30
Bin He Princeton University Evolution of a Gene Regulatory Network Controlling Phosphate Starvation Response in a Commensal Yeast
Abstract   Video   Flyer
11/17
Joachim O. Rädler Ludwig-Maximilians-University München, Germany Single Cell Time-Lapse Imaging on Micro-Arrays - gene expression kinetics and signaling pathways
Abstract    Video   Flyer
10/20
Adam Siepel Simons Center for Quantitative Biology Cold Spring Harbor Lab New methods for measuring natural selection and predicting deleterious variants in noncoding regions of the human genome
Abstract   Video   Flyer
10/13
David McCandlish Simons Center for Quantitative Biology Cold Spring Harbor Lab Modeling and understanding complex sequence-function relationships
Abstract   Video   Flyer
09/15
Leor Weinberger UCSF The Cell’s Bunsen Burner: How Transcriptional Fluctuations Regulate Fate
Abstract   Video   Flyer
09/13
Michael Manhart Harvard University Fitness is a many-splendored thing: molecular basis and ecological consequences of selection on multiple microbial growth traits
Abstract   Video   Flyer
06/27
Greg Lang Lehigh University, Bethlehem Genome Evolution in Laboratory Populations of Yeast
Abstract   Video   Flyer
05/12
Martin McCullagh Colorado State University Developing Accurate Implicit Solvent Models for the Simulation of Hydrophobic Aggregation
Abstract   Video   Flyer
04/28
Kunihiko Kaneko University of Tokyo Deep Linearity in Phenotypic Adaptation and Evolution: Macroscopic Theory, Microscopic Simulations, and Bacterial Experiments
Abstract   Video   Flyer
04/21
Steven Kleinstein Yale School of Medicine Analysis of B cell antibody repertoires from next-generation sequencing in multiple sclerosis and other diseases
Abstract   Video   Flyer
04/07
Chris Bakal The Institute of Cancer Research, London Using Image-omics to understand the relationship between cell shape and transcription in cancer cells
Abstract   Video   Flyer
03/31
Thierry Emonet Yale University Non-genetic diversity modulates population performance
Abstract   Video   Flyer
03/03
Scott Hansen University of California at Berkeley Pattern formation and geometry sensing based on stochastic composition fluctuations in a kinase-phosphatase competition reaction
Abstract   Video   Flyer
02/24
Adam Lauring University of Michigan Medical School Fidelity and mutational load in RNA virus evolution
Abstract   Video   Flyer
02/03
Will Ratcliff Georgia Institute of Technology Exploring the origin of multicellularity through experimental evolution
Abstract   Video   Flyer
01/20

2016

 

SpeakerAffiliationTitleDate
Joshua Wand University of Pennsylvania Entropy in molecular recognition by proteins
Abstract   Video   Flyer
12/02
Nicholas Hud Georgia Tech Seeking a plausible prebiotic solution (and solvent) for the origin of RNA
Abstract   Video   Flyer
11/18
Tim Lohman Washington University How do helicases unwind DNA?
Abstract   Video   Flyer
11/04
Jeff Skolnick Georgia Institute of Technology PROGNOSTIX: A pipeline for personalized diagnostics and drug treatments
Abstract   Video   Flyer
10/21
Lanying Zeng Texas A&M University Subcellular Decision Making: Virus Interactions within the Cell
Abstract   Video   Flyer
10/14
Robert S. Cantor Dartmouth College Synaptic neurotransmission, the mechanism of anesthesia, and the evolutionary origin of the need to sleep
Abstract   Video   Flyer
09/30
David R. Walt Tufts University Microwell arrays as a platform for making Biological and Clinical measurements
               Video  
09/21
Ken Dill Laufer Center, Stony Brook University, NY Careers Skills talk
               Video  
09/15
Qinghua Wang Baylor College of Medicine, Houston, Texas Molecular Mechanisms of Actin Nucleation
Abstract   Video   Flyer
09/09
Gerhard Stock University of Freiburg Energy and signal flow in biomolecules
Abstract   Video   Flyer
06/22
Sanjay Jain University of Delhi Mathematical models of bacterial growth: Understanding cell size, composition and phenotypic variability
Abstract   Video   Flyer
06/21
Ned Wingreen Princeton University Why so many feedbacks in Vibrio harveyi quorum sensing?
Abstract   Video   Flyer
05/20
Mads Kaern University of Ottawa, Canada Systematic genome editing enables the identification of order within gene networks
Abstract   Video   Flyer
05/13
Jonathon Howard Yale School of Medicine Movement of Cilia and Flagella Driven by Coordinated Molecular Motors
Abstract   Video   Flyer
05/06
Dan Landau Weill Cornell Medical College, New York Genome Center Genetic and Epigenetic Determinants of Chronic Lymphocytic Leukemia Evolution
Abstract   Video   Flyer
04/29
Nikolay Dokholyan University of North Carolina at Chapel Hill Allosteric control of protein function with disorder
Abstract   Video   Flyer
04/22
Jeremy Schmit Kansas State University Amyloid aggregation from nanoseconds to decades
Abstract   Video   Flyer
04/18
Murat Acar Yale University Systems level analysis of gene network activity for a dosage-compensating network
Abstract   Video   Flyer
04/15
Qiang Cui University of Wisconsin-Madison Multi-scale models in biophysics: developments and applications
Abstract   Video   Flyer
04/08
Lucas Carey Universitat Pompeu Fabra Barcelona The causes and consequences of non-genetic heterogeneity in cell proliferation
Abstract   Video   Flyer
04/06
Avner Schlessinger Icahn School of Medicine at Mount Sinai, New York Ligand discovery for challenging targets from homology modeling and virtual screening
Abstract   Video   Flyer
03/25
Thomas B. Kepler Boston University School of Medicine Evolutionary Dynamics in the Antibody Response
Abstract   Video   Flyer
03/11
Timothy F. Kowalik University of Massachusetts Medical School Leveraging molecular biology and population genetics to reveal the natural history of clinically significant viral infections
Abstract   Video   Flyer
02/26
Seogjoo Jang City University of New York Learning design principles for efficient and robust light harvesting from purple bacteria
Abstract   Video   Flyer
01/29

2015

SpeakerAffiliationTitleDate
James J. Collins MIT Laufer Distinguished Lecturer : Radical Approaches to Antibiotics and Antibiotic Research
Abstract    Video   Flyer
12/04
James J. Collins MIT Laufer Distinguished Lecturer : Synthetic Biology: Redesigning Life
Abstract    Video   Flyer
12/03
Audrey P. Gasch University of Wisconsin - Madison Exploiting the yeast stress-activated signaling network to inform on stress biology and disease signaling
Abstract   Video   Flyer
11/20
Ulrich Zachariae University of Dundee Ion Channels and Receptors at Work: Atomistic Simulations of Membrane Proteins Under Voltage
Abstract   Video   Flyer
11/13
Gavin Crooks LBNL Optimal Thermodynamic Control and the Dynamic Riemannian Geometry of Ising magnets
Abstract   Video   Flyer
10/30
Judy Berman Tel Aviv University Molecular Microbiology & Biotechnology
Abstract   Video  Flyer
10/27
David Botstein Princeton Laufer Distinguished Lecturer : Evolution and Cancer
Abstract    Video   Flyer
10/16
David Botstein Princeton Laufer Distinguished Lecturer : Cellular Stress Response at the System Level in Yeast
Abstract    Video   Flyer
10/15
Pratyush Tiwary Columbia Towards predictive pharmacodynamics simulations with recent developments in enhanced sampling.
Abstract    Video
10/13
Matt Jacobson UCSF Emerging challenges for computer-aided drug design: macrocycles and allosteric modulators.
Abstract     Video
10/09
Lane Votapka UCSD Multiscale Estimation of Binding Kinetics Using Brownian Dynamics, Molecular Dynamics, and Milestoning.
Abstract    Video
10/05
Jeremy L. England MIT Boltzmann's Dog and Darwin's Finch: Nonequilibrium statistical mechanics of self-replication and evolutionary adaptation.
Abstract     Video
10/02
Kent Kirshenbaum & Rich Bonneau NYU Folding Biomimetic Oligomers: Experiments Guided by Computation, Computation Guided by Experiment
Abstract     Video
09/25
Kevin C. Chen Rutgers University Predicting enhancer elements from human epigenomics data by spectral learning of Hidden Markov Models
Abstract     Video
09/11
Tomaz Urbic University of Ljubljana, Slovenia Thermodynamics and solvation properties of coarse grained model of water and methanol
Abstract     Video
08/12
Alan E. Mark University of Queensland Reconciling Theory and Experiment: The Search for Certainty in an Uncertain World
Abstract     Video
07/28
Modesto Orozco University of Barcelona The DNA: From the Electron to the Chromosome
Abstract     Video
07/13
Saeed Tavazoie Columbia University Decoding the regulatory genome
Abstract      Video
05/15
Elizabeth M. Boon Stony Brook University Nitric oxide regulation of bacterial biofilms
Abstract      Video
04/24
Michael Feig Michigan State University Structure and dynamics of biological macromolecules at cellular scales
Abstract      Video
04/17
Thomas Poulos University of California, Irvine Nitric Oxide Synthase as a Target for Structure Based Drug Design.
Abstract      Video
04/10
Eugene I. Shakhnovich Harvard University Biophysical Walks on Fitness Landscapes.
Abstract      Video
04/08
Lars E. P. Dietrich Columbia University Metabolic regulation of community behavior in Pseudomonas aeruginosa
Abstract      Video
04/03
Joseph Audie SacredHeart University Computer-enabled peptide drug design with CMDInventusSM
Abstract       Video
03/23
Richard M. White Weill Cornell Medical College Zebrafish as a model for tumor initiation and progression
Abstract      Video
03/13
Matthew R.Bennett Rice University Synthetic microbial consortia
Abstract      Video
02/27
Andy Feinberg Johns Hopkins University Epigenetic Stochasticity, Phenotype and the Environment
Abstract     Video
02/06
Mark Murcko UCSF
Peter Kollman Lecture
Progress Towards Predicting Ligand Binding Free Energy

      Original Video from UCSF
01/08

2014

SpeakerAffiliationTitleDate
Sergei Maslov Brookhaven National Lab Towards Predictive Modeling of Biological Networks and Evolution
Abstract      Video
12/18
Arjun Raj University of Pennsylvania Single molecule adventures in the life of a single cell
Abstract      Video
12/12
Yoshitake Sakae Nagoya University Force fields and conformational search methods for protein system
Abstract      Video
12/11
Andre Levchenko Yale University Information Bottlenecks in Signaling and the Virtues of Multicellularity
Abstract      Video
12/05
Rama Ranganathan University of Texas Southwestern Medical Center The Evolutionary "Design of Proteins"
Abstract      Video
11/21
Rohit V. Pappu Washington University in St. Louis Connecting form to function for intrinsically disordered proteins
Abstract      Video
11/07
Donald M. Engelman Yale University Targeting and treating acidic tumors using pHLIP, a membrane inserting peptide
Abstract      Video
10/24
Ivet Bahar University of Pittsburgh Learning from Computational Models, and Molecular and Systems Pharmacology Methods: Insights into Neurotransmitter Transport and Neuronal Autophagy
Abstract      Video
10/16
Ian Ehrenreich University of Southern California Contributions of higher-order genetic interactions to heritable traits
Abstract      Video
10/10
Olivier Elemento Weill Cornell Medical College The genomic and epigenomic evolution of cancer
Abstract      Video
10/03
Philip M. Kim University of Toronto Novel Drug Leads: Highly Parallel Screening of Disordered Peptide Motifs for Phenotypic Effects in Cells
Abstract      Video
09/26
Joao de Bivar Xavier Memorial Sloan-Kettering Cancer Center The Cancer Metabolic Microenvironment
Abstract      Video
09/19
Christine Vogel New York University Yeast ubiquitinomics -- cellular signaling during oxidative stress
Abstract      Video
09/12
Jeetain Mittal Lehigh University Simulations of biomolecular assembly processes at interfaces
Abstract      Video
09/05
Brandon S. Razooky Oak Ridge National Laboratory Regulation of HIV persistence: a stochastic, virally controlled process
Abstract      Video
07/25
Chris Sander Computational Biology Center Memorial Sloan Kettering Cancer Center, New York City

Laufer Distinguished Lecturer--Cancer systems biology and the design of combinatorial therapy

Abstract        Video

06/03
Chris Sander Computational Biology Center Memorial Sloan Kettering Cancer Center, New York City

Laufer Distinguished Lecturer--Physics meets biology

Abstract       Video

06/02
Firas Khatib University of Massachusetts Dartmouth Foldit: Scientific discovery by protein folding game players
Abstract     
05/27
Gabriel Rocklin University of Washington Designing protein structures de novo the Rosetta way
Abstract     
05/22
John D. Chodera Memorial Sloan-Kettering Cancer Center Redesigning Drug Design
Abstract      Video
04/29
Dave Thirumalai University of Maryland Stepping kinetics of Myosin motors: Moving forward, Backward, and foot Stomping
Abstract      Video
04/22
Marco Cosentino Lagomarsino Université Pierre et Marie Curie Statistical laws in genome evolution
Abstract      Video
04/15
Tack Kuntz UCSF
Peter Kollman Lecture
Computation, Modeling & Evolution at UCSF: Past, Present, Future

      Original Video from UCSF
04/03
Shenshen Wang MIT Guiding Affinity Maturation to Generate Broadly Neutralizing Antibodies
Abstract      Video
04/01
Darrin York Rutgers University

Multiscale modeling methods to study RNA folding and catalysis
Abstract      Video

03/25
NYTaC3 Stony Brook University

Robert Rizzo, Stony Brook University: Strategies for lead discovery using footprint similarity scoring, Video

 

Ping Liu, BNL: Theoretical insight into heterogeneous catalysis at nanoscale,  Video

 

Scott Auerbach, University of Massachusetts, Multiscale Modeling of Inorganic Nanopore Formation, Video

 

Ken Dill, Stony Brook University, The Principle of Maximum Caliber: a new way to look at Nonequilibrium Statmech

 

Themis Lazaridis, City College, CUNY, Studies of peptide translocation and pore formation in lipid bilayers, Video

 

George Makhatadze, Rensselaer Polytechnic Institute, Modulation of protein folding energy landscape by charge‐charge interactions: Experimental and computational studies, Video

 

Vikas Nanda , Rutgers University, Molecular Design of Collagen Higher‐Order Assembly, Video

 

Nandini Ananth, Cornell University, Path‐integral based dynamics for multi‐electron processes

03/21
Seth Horne University of Pittsburgh Biomimetic Agents and Designer Materials from Protein-like Molecules Beyond Nature’s Covalent Structures
Abstract      Video
03/18
Andrés Cisneros Wayne State University Insights on liquid systems and DNA repair from computational simulations
Abstract      Video
03/11
Daniel S. Fisher Stanford University How much sex is enough?
Abstract
02/12
Ivet Bahar University of Pittsburgh Target flexibility, druggability and promiscuity: Major considerations in computer-aided drug discovery
Abstract      Video
01/14

2013

SpeakerAffiliationTitleDate
Robert Best NIDDK, National Institutes of Health How important are non-native interactions for protein folding? Insights from all-atom simulations
Abstract      Video
12/10
Heather Carlson University of Michigan MixMD: Development of Accurate Methods for Mapping Protein Surfaces
Abstract      
12/03
Jesmin Jahan Tithi Stony Brook University Fast Polarization Energy on Multicores, Clusters of Multicores and GPUs
Abstract      
11/26
Haw Yang Princeton University Insights from Single-Molecule Protein Dynamics—Conformation Bias, Local Unfolding, and Architectural Encoding
Abstract      
11/19
Sagar D. Khare Rutgers, The State University of New Jersey Computational design of novel protein functions
Abstract      
11/05
Shekhar Garde Rensselaer Polytechnic Institute Water, Proteins, Interfaces, and Assembly: A New Molecular Perspective
Abstract      
10/22
John Karanicolas University of Kansas Designing chemical tools to modulate protein function
Abstract      Video
10/10
Dima Kozakov Boston University Global sampling of macromolecular association energy landscapes using Fast Fourier Transforms and their generalizations.
Abstract      
09/18
Jose Onuchic Rice University From Protein Folding to Molecular Machines of Life
Abstract      Video
09/16
Joseph Morrone Columbia University The role of molecular scale hydrodynamics in the kinetics of hydrophobic assembly
Abstract      Video
07/24
Qing Nie UC Irvine Robust and Stochastic Dynamics in Signal Transduction and Developmental Patterning
Abstract       Video
04/30
Mike Keiser SeaChange Pharmaceuticals, Inc. Predicting unexpected off-targets for approved drugs
Abstract       Video
04/23
Sasha Levy Stanford University High-throughput lineage tracking reveals complex population dynamics in response to environmental change
Abstract       Video
04/09
Chenghang Zong Harvard Whole Genome Amplification and Sequencing of Single Human Cells
Abstract       Video
04/04
Kirill Korolev MIT Ecology and evolution of cancer tumors and expanding populations
Abstract       Video
03/28
Richard W. Aldrich University of Texas at Austin Allosteric Gating of Voltage and Calcium Activated Potassium Channels
Abstract       Video
03/26
Lucas Carey Weizmann Institute Understanding DNA encoded mechanisms of regulation using high-throughput measurements of cell-to-cell variability
Abstract       Video
03/13
Daniel Dwyer Boston University Quantitative exploration of antibiotic-induced bacterial cell death physiology
Abstract       Video
03/12
Danielle Basset University of California Santa Barbara Network Architecture and Predictive Dynamics of Brain Systems
Abstract      
03/07
Jianhua Xing Virginia Polytechnic Institute and State University Physics meets biology: Simplicity out of complexity
Abstract       Video
03/05
Zachary Pincus Yale University Variability in Longevity and the Origins of Individuality
Abstract       Video
02/26
Vikas Nanda Rutgers University Computational design of protein misfits
Abstract       Video
02/19
David Mobley University of California, Irvine Calculating binding free energies from molecular simulations: Blind predictions, model binding sites, and automated planning
Abstract       Video
02/12
Joanna Slusky Developmental Therapeutics Philadelphia The ins and outs of charges in membrane proteins
Abstract       Video
01/29
Cheemeng Tan Carnegie Mellon University Creating Synthetic Biological Systems with Coupled Genetic and non-Genetic Control Elements
Abstract       Video
01/22

2012

SpeakerAffiliationTitleDate
D. Allan Drummond University of Chicago Selection against protein aggregation at the proteome scale
Abstract      
12/11
Jie Xiao Johns Hopkins University Gene regulation at the single-molecule level: transcription factor and DNA looping
Abstract       Video
11/13
Gabor Balazsi The University of Texas MD Anderson Cancer Center Networks, noise and evolution: Lessons from synthetic gene circuits
Abstract       Video
11/06
Lingchong You Duke University The inoculum effect and band-pass bacterial response to periodic antibiotic treatment
Abstract       Video
10/09
Dave Mathews University of Rochester Medical Center   09/25
Guanyu Wang George Washington University Around Singularity, the Connections of Diseases
Video
09/18
Brandon Xia Boston University Biological Networks in Three Dimensions
Video
09/11
Ron Koder CCNY Engineering Artificial Protein Function
Video
09/04
Claus Wilke University of Texas at Austin A structural perspective on protein molecular evolution
Abstract       Video
08/28
Julia Hockenmaier University of Illinois at Urbana Champaign Dynamic programming for ab-initio prediction of protein folding routes
Abstract      
05/29
Willy Wriggers Weill Cornell Medical College Emergent Complexity of Multiscale Computational Modeling
Abstract      
04/24
Adrian Roitberg University of Florida,Gainesville Sometimes a pKa is not a pKA. Protein Simulations at Constant pH
Abstract      
04/17
Yuhai Tu IBM Watson Research Center Systems biology of a simple organism: On E. coli's memory, computation, and energy cost
Abstract      
03/20
Jeffrey Gore Massachusetts Institute of Technology Cooperation, cheating, and collapse in microbial populations
Abstract      
01/24

2011

SpeakerAffiliationTitleDate
Regis Pomes University of Toronto Aggregated Yet Disordered: Towards a Unified Model of Structure and Function in Self-Assembled Elastomeric Proteins
Abstract      
12/13
Markus Seeliger Stony Brook University Medical School Mechanism of a New Class of Highly Specific Src Inhibitors
Abstract      
11/29
Hue Sun Chan University of Toronto Cooperativity, Local-Nonlocal Coupling, and Nonnative Interactions in Protein Folding
Abstract      
11/15
Gregory A. Voth University of Chicago Theory and Simulation of Biomolecular Systems: Surmounting the Challenge of Bridging the Scales
Abstract      
11/08
Joel L. Sussman Weizmann Institute of Science Intrinsically Disordered Proteins: Why are they More Abundant in Higher Organisms?
Abstract      
10/25
Joanna Masel University of Arizona Molecular errors, cryptic genetic variation, and evolvability
Abstract      
10/04
Hong Qian University of Washington Mesoscopic Open Biochemical Reaction Systems and Delbruck-Gillespie Processes for Stochastic Biochemical Population Dynamics
Abstract      
09/23
Jhih-Wei Chu University of California, Berkeley Multiscale Simulation for Biomolecular Engineering: Protein Allostery and Cellulose Deconstruction
Abstract      
09/14
Koby Levy Weizmann Institute of Science Biophysics and evolution of post-translation modification
Abstract      
06/13
Purushottam Dixit John Hopkins University Thermodynamics of metal-protein interactions
Abstract      
05/24
Jiang Zhu NIAID/NIH Analyzing CD4 binding site-directed broadly neutralizing HIV-1 antibodies by 454 pyrosequencing and computational bioinformatics
Abstract      
05/17
Paul Matsudaira National University of Singapore Dynamics of nm-size droplets of water at the confined-bulk transition
Abstract      
05/12
Jorg Schwender Brookhaven National Laboratory Quantitative Analysis of Metabolic Fluxes in Plants
Abstract      
05/03
Ross Walker University of California, San Diego Supercomputer in a Desktop: Extreme Acceleration of Scientific Applications Using NVIDIA GPUs
Abstract      
04/26
Hao Ge Fudan University Stochastic dynamics in biochemical systems: from single-molecule kinetics to Chemical master equation
Abstract      
04/21
Sebastian Bernhardsson Copenhagen University Structural correlations in bacterial metabolic networks
Abstract      
04/19
Alexey Onufriev Virginia Tech The Simple Approaches to Complex Biology
Abstract      
04/12
Themis Lazaridis City College of New York Modeling Membrane Binding and Permeabilization by Antimicrobial Peptides
Abstract      
03/22
Ronald M. Levy Rutgers University Exploring landscapes for protein binding and folding using replica exchange dynamics, kinetic networks and Markov state models
Abstract      
03/15
Yan Li Brookhaven National Laboratory First-Principles Studies of Cellulose I: crystal structure, intermolecular interactions and water adsorption
Abstract      
03/08
Michael Schatz Cold Spring Harbor Laboratory Cloud Computing and the DNA Data Race
Abstract      
02/15

2010

SpeakerAffiliationTitleDate
Marco Ceruso The City College of New York, CUNY Elnedin: a mixed coarse-grained molecular model for the simulation of protein dynamics and protein interactions 11/30
David R. Langley Bristol-Myers Squibb Co., R&D Three-dimensional models of the HIV-1 integration complex 11/16
Lee H. Woodcock University of South Florida Multiscale Modeling as an Avenue to Explore Enzyme Reactivity and Structure 11/02
Kenneth Foreman Astellas Pharma Industrial Strength Computational Chemistry 10/19
Wei Yang Florida State University High Order Generalized Ensemble Methods: A Possible Path to Quantitative Biomolecular Simulations 10/12
Bud Mishra New York University Detectability of Certain Dark-Genome-Matter Candidates: Algorithms for Assembling Genomes Correctly 09/28
Chris Sander Memorial Sloan-Kettering Cancer Center Systems Biology of Cancer Cells 09/21
Bill Jorgensen Yale University NYAS Chemical Biology Discussion Group Meeting 06/08
Emmanuel Mongodin University of Maryland School of Medicine Pan Genome of Borrelai burgdorferi 05/18
Marta Filizola Mount Sinai School of Medicine Molecular Recognition, Activation, and Functional Specificity of G-Protein Coupled Receptors as Assessed by Biased Molecular Dynamics 05/04
Distinguished Speakers Stony Brook University Cancer Center and Department of Molecular Genetics & Microbiology Symposium Cancer Stem Cells, Differentiation and Metastasis Symposium 04/27
Ken A. Dill University of California, San Francisco Nonequilibrium statistical mechanics of few-particle systems, such as in biology and nanotechnology 04/13
Roberto Sanchez Mount Sinai School of Medicine Identifying protein-ligand binding sites: combining physics and evolution 04/06
Tomas Lindahl London Research Institute 2010 ZICKLER LECTURE 03/30
Daniel Bogenhagen, MD Pharmacological Sciences, Stony Brook University Mitochondrial Molecular Systems Biology: From the Origins of Life to Human Disease 03/16
James Glimm Applied Mathematics and Statistics, Stony Brook University Parallel Computing: A Tutorial--Everything you wanted to know but were afraid to ask. 03/15
Danny Bluestein Bioengineering, Stony Brook University Numerical modeling approaches for optimizing cardiovascular devices and enhancing cardiovascular disease diagnostics 03/09
Yingkai Zhang Chemistry, New York University Multiscale Simulation of Histone Modifications
Abstract      
03/02
Wei Zhu Applied Mathematics and Statistics, Stony Brook University New Development in Pathway zhang 02/23
John R. True Ecology and Evolution, Stony Brook University The genome as an environment: the role of epistatic genes and networks in adaptation and speciation. 02/09

2009

SpeakerAffiliationTitleDate
David Case Chemistry & Chemical Biology, Rutgers University Critical tests of the quality of protein molecular dynamics simulations in solution and crystals 12/15
Bernard Brooks Laboratory of Computational Biology, National Institutes of Health/National Heart, Lung, and Blood Institute Examining Protein Structure and Function using Multi-scale Methods 12/08
Steven Skiena Computer Science, Stony Brook University Genome Sequence Assembly and Synthetic Design: Better Reading and Writing through Algorithmetic 12/01
Ellen Li Department of Medicine, Division of Gastroenterology and Hepatology; Stony Brook University A novel pathway discovery and analysis paradigm for inflammatory bowel diseases 11/24
Charles M. Fortmann Materials Science & Engineering; Stony Brook University The biomechanics of protein folding and applications 11/17
Ken A. Dill University of California at San Francisco Exploring the physical principles of protein folding 11/03
Alex MacKerell University of Maryland School of Pharmacy Optimizing ligand-protein interactions via SILCS: Site Identification by Ligand Competitive Saturation 10/27
Eugene V. Koonin National Institutes of Health Systems biology and universals of genome evolution 10/13
DISTINGUISHED SPEAKERS   ICB&DD Symposium Frontiers in Chemical Biology and Drug Discovery 10/06
Robert Jernigan Iowa State University Functional protein motions
Abstract      
09/29
DISTINGUISHED SPEAKERS   Laufer Center Inaugural Symposium 09/25
Randy Jirtle Department of Radiation Oncology, Duke University, Durham, NC Epigenetics: The New Genetics of Disease Susceptibility 05/19
John Moult Center for Advanced Research in Biotechnology, University of Maryland Biotechnology Institute SNPs, Protein Structure, and Disease 05/12
William Studier Brookhaven National Laboratory, Upton, NY Learning from genome sequences of E. coli B and K 05/05
Andrea Califano Center for Computational Biology and Bioinformatics, Columbia University Medical Center, New York, NY Molecular Network analysis reveals master regulators of physiologic and pathologic human phenotypes 04/28
Nicholas Patterson The Broad Institute, Cambridge, MA Learning the Genetic History of South Asia from Genome-wide Data 04/14
Michael Hadjiargyrou Stony Brook University, Stony Brook, NY Unraveling the Molecular Basis of Bone Regeneration 03/17
Dax Fu Brookhaven National Laboratory, Upton, NY Novel metallochemistry in zinc transporters: integration of structural, functional and computational analyses 03/10
Steffen Mueller Stony Brook University, Stony Brook, NY Synthetic DNA technologies - perils and promise for the future of bioscience 02/24
Mickey Atwal Cold Spring Harbor Laboratory, Cold Spring Harbor, NY Natural Selection of Genetic Fidelity 02/10
Jin Wang Stony Brook University, Stony Brook, NY Potential landscape and flux framework of nonequilibrium networks: robustness, dissipation, and coherence of biochemical oscillations 02/03

2008

SpeakerAffiliationTitleDate
Michael Zhang Cold Spring Harbor Laboratory, Cold Spring Harbor, NY Computational Dissection of Mammalian Regulation Subnetworks 12/16
Weigang Qiu Department of Biological Sciences, Hunter College, New York, NY Lineage-specific genomic variations in Lyme disease bacteria and implications for pathogenesis 12/09
David S. Eisenberg University of California, Los Angeles, CA Structural Insights into Amyloid and Prion Diseases 11/25
David Baker Department of Biochemistry, University of Washington, Seattle, WA 2008 ADRIEN ALBERT LECTURE - From prediction of structure to design of function 11/21
Arnold J. Levine The Simons Center for Systems Biology, Institute for Advanced Study, Princeton, NJ 2008 ZICKLER LECTURE - The p53 Pathway: Cancer, Fertility, Metabolic Control and the Central Nervous System 11/11
Bruce Futcher Stony Brook University, Stony Brook, NY Transcription Circuits, in Shades of Green and Red 11/04
Robert C. Rizzo Stony Brook University, Stony Brook, NY Characterization of drug resistance at the atomic level 10/28
Eli Hatchwell Stony Brook University, Stony Brook, NY The Future of Personalized Medicine 10/21
Stanley Fields University of Washington, Seattle, WA Footprinting the Genome 10/17
Uri Alon Weizmann Institute of Science, Rehovot, Israel Design Principles of Biological Circuits 10/07
John Reinitz Stony Brook University, Stony Brook, NY Canalization of transcription in the Drosophila blastoderm: from data to dynamical systems 09/23
Sergei Maslov Brookhaven National Laboratory, Upton, NY Modeling biomolecular networks: from metabolism and its regulation to protein-protein interactions 09/16
David F. Green Stony Brook University, Stony Brook, NY Applied protein design: Engineering molecular interactions in complex systems 09/09