KITP Program: Evolution of Drug Resistance
(Jul 21 - Sep 19, 2014)
Coordinators: Richard Neher, Ville Mustonen, Daniel Weinreich
Scientific Advisors: Susan Fitzpatrick, Franziska Michor

Time Speaker Title
7/21, 2:00pm All Participants Organizational Meeting[Podcast][Aud][Cam]
7/21, 2:00 pm Greg Huber
KITP Deputy Director
What's a Wiki Good For?[Podcast][Aud][Cam]
7/22, 9:30am Dan Andersson
Uppsala Univ & KITP
Tutorial: Basic Bacteriology[Slides][Podcast][Aud][Cam]
7/23, 9:30am Thomas Norman
Harvard Med. & KITP
Stochasticity and cell fate choice in Bacillus subtilis[Podcast][Aud][Cam]
7/23, 11:00am Bruce Levin
Emory Univ.
The pharmaco-, population and evolutionary dynamics of antibiotic treatment: The perversity of parametric reductionism[Slides][Podcast][Aud][Cam]
7/24, 9:30am Dan Weinreich
Brown Univ. & KITP
Fitness Landscapes[Slides][Podcast][Aud][Cam]
7/24, 10:30am Arjan de Visser
Wageningen Univ.
Drug resistance landscapes[Slides][Podcast][Aud][Cam]
7/25, 9:30am Terry Hwa
Bacterial metabolism[Podcast][Aud][Cam]
7/25, 11:00am Erik van Nimwegen
Univ. of Basel & KITP
Bacterial genomics[Slides][Podcast][Aud][Cam]
7/28, 9:30am Nathalie Balaban
Hebrew Univ. & KITP
Single-Cell Variability of Growth in Bacteria as an Optimization Process[Slides][Podcast][Aud][Cam]
7/28, 10:45am Sanna Koskiniemi
Uppsala Univ. & KITP
Contact-dependent growth inhibition in bacteria[Slides][Podcast][Aud][Cam]
07/28 12:15pm Daniel Weinreich
Brown & KITP
Drug Resistance Evolution[Podcast][Aud][Cam]
KITP Blackboard Lunch
7/29, 9:30am Ulrich Nübel
Leibniz Inst.
Genomic epidemiology of healthcare-associated bacterial pathogens[Slides][Podcast][Aud][Cam]
7/29, 11:10am Erik van Nimwegen
Univ. of Basel & KITP
Benefits of an erratic boss: Expression noise facilitates the evolution of gene regulation[Slides][Podcast][Aud][Cam]
7/29, 4:00pm Gwenan Knight
Determining the drivers of antibiotic resistance epidemiology[Slides][Podcast][Aud][Cam]
7/30, 9:30am Daniel Fisher
Evolutionary dynamics in large populations and high dimensions[Podcast][Aud][Cam]
7/30, 11:10am Isabel Gordo
Inst. Gulbenkian & KITP
Evolution of E coli within ecosystems[Podcast][Aud][Cam]
7/31, 9:30am Sasha Levy
Quantitative evolutionary dynamics of one million barcoded lineages[Slides][Podcast][Aud][Cam]
7/31, 11:10am Michael Mwangi
Penn State & KITP
Heterogeneous beta-lactam resistance: A little-known but potentially huge problem[Podcast][Aud][Cam]
8/01, 9:30am David Weitz
Drop-based microfluidics for single cell studies
8/04, 9:30am Dan Andersson
Uppsala Univ & KITP
Evolution of resistance at very low antibiotic levels[Slides][Podcast][Aud][Cam]
8/05, 9:30am Martin Weigt
Univ. Pierre et Marie Curie & KITP
Residue coevolution in proteins - from 3D structure prediction to inferring mutational landscapes[Podcast][Aud][Cam]
8/06, 9:30am Bonnie Bassler
Small RNA Control of Quorum Sensing in Bacteria[Podcast][Aud][Cam]
8/06, 11:10am Ned Wingreen
Princeton & KITP
Modelling quorum sensing and 16S metagenomics of the human tongue[Slides][Podcast][Aud][Cam]
8/07, 9:30am Andrew Murray
Harvard & KITP
Rigorous Speculation? Engineering and Experiment on the Evolution of Novelty[Podcast][Aud][Cam]
8/08, 9:30am Paul Rainey
Massey Univ. & KITP
Why parallel evolution?
8/11, 9:30am Oskar Hallatschek
Speed and patterns of evolutionary spreading[Podcast][Aud][Cam]
8/12, 9:30am Michael Laub
Specificity and Evolution of Bacterial Signaling Pathways[Podcast][Aud][Cam]
8/12, 11:10am Michael Elowitz
Caltech & KITP
It's about time: Time-based regulation in individual cells
8/13, 9:30am Richard Neher
Intra-patient HIV evolution[Slides][Podcast][Aud][Cam]
8/13, 4:00pm Anne-Florence Bitbol
Princeton & KITP
Quantifying the role of population subdivision in evolution on rugged fitness landscapes[Slides][Podcast][Aud][Cam]
8/14, 9:30am Celia Schiffer
UMass & KITP
Combating Drug Resistance: Lessons From Viruses: Influenza, HIV and HCV[Slides][Podcast][Aud][Cam]
8/14, 4:00pm Mehran Kardar
Predicting the evolution of drug resistance in HIV Protease[Podcast][Aud][Cam]
8/15, 9:30am Alan Perelson
Modelling HCV infection, therapy and drug resistance[Slides][Podcast][Aud][Cam]
8/15, 11:10am Charlotte Hedskog
Gilead Sciences Inc.
Genotype and Subtype independent Full Genome Sequencing Assay for Hepatitis C Virus[Slides]
8/18, 9:30am Alex Sigal
Infection by the numbers: Effect of multiplicity of infection on infection outcome in HIV and TB
8/18, 11:10am Igor Rouzine
An Evolutionary Role for HIV Latency in Enhancing Viral Transmission[Podcast][Aud][Cam]
8/19, 9:30am Colin Russell
Univ. of Cambridge & KITP
The global circulation of seasonal influenza viruses
8/19, 11:10am Katia Koelle
Duke Univ. & KITP
The role of deleterious mutations in influenza's adaptive (antigenic) evolution[Slides][Podcast][Aud][Cam]
8/20, 9:30am Marta Luksza
(Columbia & KITP)
Michael Lässig
(Univ. Cologne & KITP)
Predicting the evolution of human influenza[Slides][Podcast][Aud][Cam]
8/20, 11:10am Boris Shraiman
Richard Neher
Predicting evolution from the shape of genealogical trees[Slides][Podcast][Aud][Cam]
8/21, 9:30am Roy Kishony
Real-time evolution
8/21, 11:10am Paul Turner
Yale & KITP
RNA virus adaptation (or not) to environmental change[Slides][Podcast][Aud][Cam]
8/22, 10:30am All Student Presentations I[Podcast][Aud][Cam]
8/22, 12:10pm All Student Presentations II[Podcast][Aud][Cam]
8/22, 13:30pm All Student Presentations III[Podcast][Aud][Cam]
8/25, 9:30am Dominic Kwiatkowski
Univ. Oxford & KITP
Observing drug resistance as it emerges[Slides][Podcast][Aud][Cam]
8/25, 11:10am Philipp Messer
Cornell & KITP
Population genetics of selective sweeps in drug resistance evolution[Slides][Podcast][Aud][Cam]
8/26, 9:30am Ian Cheeseman
Texas Biomedical Research Institute & KITP
Finding drug resistance genes[Slides][Podcast][Aud][Cam]
8/26, 11:10am Trevor Bedford
Fred Hutchinson Cancer Research Center & KITP
Influenza antigenic evolution and vaccine strain selection[Slides][Podcast][Aud][Cam]
8/27, 9:30am Richard Maude
Univ. Oxford & KITP
Eliminating artemisinin-resistant malaria[Podcast][Aud][Cam]
8/28, 9:30am Roberto Amato
Univ. Oxford & KITP
Genetic architecture and evolution of artemisinin resistance in Plasmodium falciparum[Slides][Podcast][Aud][Cam]
8/29, 9:30am Alfred Amambua-Ngwa
Medical Research Council Unit, Gambia & KITP
Temporal changes in Plasmodium falciparum populations in the Gambia[Podcast][Aud][Cam]
9/02, 9:30am Tim Downing
Extensive and adaptive genome structure variation drives the evolution and epidemiology of visceral leishmaniasis in the Indian subcontinent[Slides][Podcast][Aud][Cam]
9/03, 9:30am Christopher Illingworth
Univ. of Cambridge & KITP
Localising selection from resequencing data: Linking genes to phenotypes in malaria parasites[Slides][Podcast][Aud][Cam]
9/04, 9:30am Ville Mustonen
Wellcome Trust Sanger Inst. & KITP
The emergence of resistant clones in heterogeneous populations[Slides][Podcast][Aud][Cam]
9/04, 4:00pm Michael Hochberg
Univ. Montpellier & KITP
A window of opportunity to control the bacterial pathogen Pseudomonas aeruginosa combining antibiotics and phages[Podcast][Aud][Cam]
9/05, 9:30am Brandon Ogbunu
Harvard & KITP
Fitness landscape by environment interactions inform models of rational drug therapy in P. falciparum[Slides][Podcast][Aud][Cam]
9/08, 9:30am Ville Mustonen
(Wellcome Trust Sanger Inst. & KITP)
Dan Weinreich
(Brown Univ. & KITP)
What can theory do for human health?[Podcast][Aud][Cam]
9/08, 10:15am Robert Gatenby
Evolution and ecology in cancer biology and therapy[Slides][Podcast][Aud][Cam]
9/08, 4:00pm Larry Nagahara
Nat'l Cancer Inst.
Evolution of drug resistance in cancer: Can a physical science perspective benefit the patient?[Podcast][Aud][Cam]
9/09, 9:30am Joel Brown
Univ. Illinois & KITP
Cancer therapy as evolutionary game[Podcast][Aud][Cam]
9/09, 11:10am Daniel Weinreich
Brown & KITP
Genomic clustering of driver mutations favors the evolution of chromosomal instability[Slides][Podcast][Aud][Cam]
9/09, 3:30pm Joel Brown
(Univ. Illinois & KITP)
Robert Gatenby
Data brainstorming[Podcast][Aud][Cam]
9/10, 9:30am Michael Hochberg
Univ. Montpellier
Long-term management of tumor growth and resistance[Slides][Podcast][Aud][Cam]
9/11, 9:30am Chris Greenman
Univ. E. Anglia & KITP
Problems with modelling mutational and clonal features of epithelial tissues[Slides][Podcast][Aud][Cam]
9/11, 11:10am Darryl Shibata
Is it possible to reconstruct the first few divisions after human tumor initiation? (And why this might be important!)[Slides][Podcast][Aud][Cam]
9/12, 9:30am Marco Gerlinger
The Institute of Cancer Research
Genetic complexity of drug resistance evolution: implications for clinical predictions and therapy in GI and renal cancers[Podcast][Aud][Cam]
9/12, 11:10am Joe Gray
Oregon Health and Science Univ.
A spatial systems biology approach to therapeutic resistance in cancer[Podcast][Aud][Cam]
9/15, 9:30am Kristin Swanson
Northwestern Univ. & KITP
Quantifying and Predicting Glioblastoma Dynamics: Untreated Growth, Response to Therapy and Recurrence Kinetics[Podcast][Aud][Cam]
9/15, 11:10am Joshua Rubin
Washington University in St. Louis
Consequences of sexual selection on cancer rates and therapeutic responses[Podcast][Aud][Cam]
9/16, 9:30am Tom Mikkelsen
Henry Ford Hospital
Something on brain tumors[Slides][Podcast][Aud][Cam]
9/16, 11:10am Santosh Kesari
Personalizing therapies for brain cancers[Slides][Podcast][Aud][Cam]
9/16, 3:30pm All Brain cancer data brainstorm
9/17, 9:30am Kim Grafton, MD
Dan Greenwald, MD
(Medical Oncologist)
Gary Ponto, MD
KITP Tumor Board[Slides][Podcast][Aud][Cam]
9/17, 3:30pm Milan Makale
Drug delivery challenges and tumor resistance[Slides][Podcast][Aud][Cam]
9/18, 9:30am Benjamin Raphael
Algorithms for intra-tumor (and inter-tumor?) mutational heterogeneity[Podcast][Aud][Cam]
9/18, 11:10am Sohrab Shah
Clonal dynamics in space and time in human cancer[Podcast][Aud][Cam]
9/19, 9:30am Daniel Weinreich
(Brown Univ.)
Ville Mustonen
(Wellcome Trust Sanger Inst.)
What have we learned?[Podcast][Aud][Cam]

last modified 09/15/14 dme