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College of Science and UHC Thesis Mixer
ALS 2145 541-737-2305
Kevin Ahern Biochemistry and Biophysics
Section 1
Interactive
Approachable
Electronic
Section 2 Thesis topic ideas/opportunities
Learning Modules
Music
Videos
Problem solving
Novel approaches to education in
biochemistry/biophysics and the sciences.
College of Science and UHC Thesis Mixer
ALS 2077A 541-737-6224
David Hendrix Biochemistry and Biophysics
Opportunities in the Hendrix Lab
Learn computer programming
Work with large data sets “Big Data”
Collaborate with biologists throughout
OSU and beyond
My lab works on bioinformatics and
computational biology in numerous systems
ranging from fruit fly circadian rhythms to
human lncRNAs.
College of Science and UHC Thesis Mixer
ALS 2040 541-737-4517
Colin Johnson Biochemistry and Biophysics
6 Ferlin genes in the human genome
Dysferlin – muscle repair and muscular
dystrophy
Myoferlin – cell signaling and breast
cancer
Otoferlin – neurotransmitter release and
deafens
Fer1L-4 - unknown
Fer1L-5 - unknown
Fer1L-6 - unknown
Using zebrafish to study otoferlin
and Fer1L-6 Thesis topic ideas/opportunities
How does otoferlin control
neurotransmitter release?
What is the physiological role of Fer1L-6?
Membrane fusion proteins and their link to
deafness, muscular dystrophy, breast cancer,
and organism development
College of Science and UHC Thesis Mixer
Nash 422 541-737-3496
Martin Schuster Microbiology
Overview
Microbes aren’t loners, they work
together!
They cooperate, communicate and cheat
Models to understand the evolution of
cooperation
Implications for infectious disease and
new antibiotics
Thesis topic ideas/opportunities
Mechanism and evolution of “quorum sensing”
and iron acquisition in P. aeruginosa:
Heterogeneity
In vitro evolution
Role of stress
Bacterial sociology
Let’s listen to Pseudomonas aeruginosa:
? !
College of Science and UHC Thesis Mixer
231 Gilbert Hall
541-737-6761
Neal Sleszynski Chemistry Department
Analytical Chemistry
Medical Diagnostics
3rd World Medical Diagnostic Testing
No $$, no power, no equipment, no logistics
Glucose
a b
Cross Disciplinary Opportunities
Chemistry, Biochemistry, Physics
Math and Statistics
Chemical, Mechanical, Materials
Engineering
Software and Apps Development
Business and Marketing
Public Health
College of Science and UHC Thesis Mixer
Gilbert Hall 333 541-737-1690
Sandra Loesgen Chemistry
Thesis topic ideas/opportunities
Isolation of Oregonian soil bacteria and
endophytic fungi
Chemical screening and bioactivity
testing of microbial metabolites
Protein-targeted assay development to
identify novel therapeutics
Chemistry of Symbiosis
Drug Discovery:
Chemistry of antibacterial, anti-cancer, and
antiviral Natural Products
?????
Isolation Fermentation Extraction/Work up Separation
Purification HPLC Analysis by LC-MS Analysis by NMR
Bioactivity
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College of Science and UHC Thesis Mixer
Weniger 373 541-737-4377
Weihong Qiu Physics
Dissect the mechanism and regulation
of molecular motors at single molecule
resolution
College of Science and UHC Thesis Mixer
Weniger 313 541-737-1242
Davide Lazzati Physics
A simulation of a gamma-ray burst explosion
Thesis topic ideas/opportunities
Why we see what we see when we look
at a gamma-ray burst?
What can stop a relativistic bullet?
Can we assemble pure iron grains?
Can we assemble cold grains in a hot
gas?
Theoretical Astrophysics
The Lazzati group studies the brightest
stellar explosions and the formation and
assembly of solids in space
A real cosmic dust
grain
A computer-generated
C60 brick for assembling
cosmic dust
College of Science and UHC Thesis Mixer
Kidder 53 541-737-1986
Debashis Mondal Statistics
Hypotheses, statistics and computations
Do DNAs follow a Markov chain?
How to map arsenic contamination?
How to understand uncertainties in a map?
How can we find extreme pollution sources?
How to detect exoplanets?
Applying the right statistics requires:
Methods from Mathematics & Computer Science!
Examples of Computations Thesis topic ideas/opportunities
Shuffling biological and other sequences
Sparse matrix computations
Semi-definite programming
Constrained Monte Carlo sampling
Convex optimization
R package and software developments
Research interests include spatial statistics,
time series analysis, matrix-free methods,
Markov chain Monte Carlo sampling
College of Science and UHC Thesis Mixer
Cordley 4082 541-737-4349
Christopher J.
Marshall Integrative Biology/OSAC
Oregon State Arthropod Collection
One of several great research/teaching
collections on campus
Largest research collection of PNW
insects in the world and largest insect
collection in PNW region.
Over 3 million specimens.
Nationally & Internationally recognized
Thesis topic ideas/opportunities
Science: Taxonomy and Biodiversity of
[insert your favorite PNW insect here]
Policy/Conservation: Museums matter:
sharing biodiversity data with the public
and policy makers
Humanities: art/writing projects related
to Insects or natural history museums
(1) Beetle Taxonomy and PNW Insects, and
(2) developing protocols, technology &
internet tools to increase access to
specimen-based biodiversity data
College of Science and UHC Thesis Mixer
Cordley 5082; HMSC 225 541-867-0314
Su Sponaugle Integrative Biology
Current NSF Project
Predator-prey dynamics in the plankton
Physical & biological processes driving
larval fish growth, survival, & dispersal
In situ imagery & otolith microstructure
analysis
Subtropical Straits of Florida
Thesis topic ideas/opportunities
Growth & survival of coral reef fish larvae
Plankton behavior from in situ imagery
Age & growth of young rockfish
Population replenishment in marine fishes.
Ecology of early life history stages, larval
dispersal, & population connectivity.
College of Science and UHC Thesis Mixer
Patrick De Leenheer Mathematics & Integrative Biology
Patched model
Pick your fav infectious
disease: ebola, HIV,
malaria
Nodes are patches (towns,
villages, countries, continents...)
Directed edges represent mobility patterns:
Pij is fraction of time a resident of patch i
spends in patch j
Problem: Find the mobility matrices P
such that
The spectral radius of P diag(R0) is
maximized/minimized.
Biological relevance:
Avoid (Favor) maximizing (minimizing)
mobility matrices P.
Modify mobility patterns P to minimize risk of
infection spread.
Vrushali Bokil
PDL
David Koslicki
Yevgeniy Kovchegov
Enrique Thomann
Ed Waymire
Mathematical Biology
Group at OSU:
Possible mentors as
individuals or as a group
Given: vector of basic reproduction numbers
R0 = (R10 R
20 …Rn
0)
Disease in isolated patch i dies out if
Ri0 < 1, but persists if Ri
0 > 1.
Similarly, extinction/persistence of the
disease in the network depends on the
spectral radius of the matrix P diag(R0)
being < 1 or > 1.
Mobility patterns and infectious diseases
College of Science and UHC Thesis Mixer
Patrick De Leenheer Mathematics & Integrative Biology
Fossil record
from Homestead
Cave, UT
Dynamics of the Dead
Mark Novak
Rebecca Terry
Jay Gopalakrishnan
Ed Waymire
f(t, a, x) represents bone density at time t, of
age a, at location x.
ft+fa = mfxx - hf
Dynamics of the Dead: How Bones Disperse
f(0, a, x) = F(a, x); Initial fossil distribution
fx(t, a, 0) = 0; No flux through bedrock
mfx(t, a, s(t)) = r(t, a); Influx of bones through the surface
f(t; 0; x) = 0; No burial before death
where
t > 0, a > 0, 0 < x < s(t)
Research Opportunities
Problems
Expense: Carbon dating = $500 per bone.
Limited excavation data: 20 bones/layer; 4 layers.
Moreover, how fossils really move in the soil is
poorly understood.
Projects
Statistical analysis for model fitting
Collect new data.
New mathematical models: PDEs, stochastic models.
College of Science and UHC Thesis Mixer
Kidder 338 541-737-5164
Elise Lockwood Mathematics
Research on counting problems
Counting problems are simple to state but
are surprisingly difficult to solve!
How do students reason about factorials?
What aspects of the multiplication principle
should students understand as they count?
What is the nature of students’
generalizations in combinatorial contexts?
What does my research entail?
I primarily conduct qualitative research,
with the aim of better understand students’
thinking about certain mathematical topics.
This involves carefully developing tasks,
interviewing students, and analyzing data.
I then draw conclusions about observed
phenomena, including ways of thinking that
seem particularly helpful or harmful.
Thesis topic ideas/opportunities
Help me better understand students’ (and
mathematicians’) combinatorial reasoning!
Learn more about research in math
education – develop tasks, interview
students, analyze student thinking, and
ultimately present and/or publish results.
Are there other topics related to
mathematics education that interest you?
How do students learn to solve problems like
How many ways are there to rearrange the
letters in the word MISSISSIPPI?
College of Science and UHC Thesis Mixer
Kidder 294C 541-737-5180
Tom Schmidt Mathematics
Function & Extension
What Does My Research Entail? Thesis work
Coding simple functions
Averaging over “orbits”
Getting “entropy function”
Learning more Mathematics
Approximate values of ``chaos” in family of
number theoretic functions. May have
connections with Mandelbrot-type sets.
