PhD Research Rotation

First year Department of Physics PhD students may use this form to select their research rotation preferences. 

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Research Rotations

Faculty Name Type Research Area Research Title Research/Project Short Description
Chao Wang Experimental Biological and Soft Matter Physics, Nanoscience and Materials Physics Sapphire-supported Nanopores for fast readout of DNA molecules and protein markers This research is to fill the knowledge gap in nanopore sensing research by creating a significantly improved nanopore sensor platform that integrates low-optical background membranes (titanium oxide and 2D materials) on low-capacitance and hence low-electrical-noise sapphire. The research team will fabricate small membranes on sapphire, establish high-throughput manufacturing methods for both membrane formation and nanopore drilling, perform single-molecule DNA and protein translocation, study the DNA-protein binding , and analyze the data for biomarker detection. The proposed sensor platform has a number of key features to support the development of a wide variety of emerging biomolecular diagnostic technologies. First, the creation of ultrasmall (<10 μm) dielectric membranes on insulating sapphire eliminates substrate conductance, and drastically minimizes the chip capacitance to a few picoFarads even for high-dielectric-constant and ultrathin (<5 nm) membranes , thus significantly reducing the background high-frequency electrical noise and markedly improving high-bandwidth sensing. Further, both membrane formation and nanopore drilling will be achieved by high-throughput manufacturing methods, i.e. wafer-scale and batch-processing compatible sapphire etching and direct laser drilling, thus enabling low-cost and repeatable production. The scalably manufactured, low-noise, high-sensitivity nanopores will facilitate high-resolution gene identification and quantitation of their methylation status in a single measurement and at a greatly reduced cost.

This project is currently by NSF grants 2020464 and 2027215.

The students are expected to participate in device fabrication, DNA molecular design, nanopore signal collection, and data analysis.
Chao Wang Experimental Biological and Soft Matter Physics, Nanoscience and Materials Physics Photochemically Induced, Polymer-Assisted Deposition for 3D Printing of Nanophotonic Devices and Biosensors Prevalent additive metal manufacturing mainly relies on thermal or laser assisted metal fusion or ink-jet printing of metal powders and nanoparticles, and has serious limitations, including large feature sizes, rough surfaces, high optical/electrical loss, and incompatibility with soft materials. This research will fill this knowledge gap by exploring a new solution-based photochemically-induced polymer-assisted deposition process to allow scalable production of metal microstructures. The research team will introduce a three-dimensional molecular precursor, consisting of an interlaid network of polymers, metal salt, and reductants, that can turn into continuous metal films and structures upon ultraviolet illumination. The research team will build a model to study the fundamental chemical and physical aspects of the growth mechanism, design a series of experiments to verify the model, explore the fundamental limits of the critical dimensions of the printed structures, combine theoretical and experimental studies, and characterize the structural, optical, and electrical performance of the printed films.

The project is currently supported by NSF 1947753.

In this project, we will explore the technology to create nanophotonic structures for color printing and biosensing.
Tanmay Vachaspati Theoretical Cosmology, Particle, and Astrophysics To be determined. To be determined.
Arunima Singh Theoretical Nanoscience and Materials Physics Excited State Theory Simulations of Ultra Materials Heterostructures This project will involve the study of ultra-wide bandgap (UWBG) materials (diamond, AlN, BN, and AlxB1-xN) heterostructure using excited state theory simulations. You will use ab-initio simulations, such as density-functional theory and excited state theory simulations, to study the interface structure, intrinsic dipole, band offsets, and defect levels of the heterostructures of the UWBG materials. The work done in the rotation will be extendable to your thesis.



The project will be a part of the ULTRA materials Department of Energy EFRC center (https://ultracenter.asu.edu/). The Ultra EFRC

center’s mission is to achieve extreme electrical properties and phenomena through a fundamental understanding of UWBG materials which will enable a resilient, smart electricity grid. It is funded at $12.4 million/4 years and is a multi-university collaborative initiative.
Ying-Cheng Lai Theoretical Physics and Society Physics enhanced machine learning Physical principles or constraints have recently been exploited to design neural networks with highly efficient learning capabilities to solve specific physics problems. Through the rotation project in Prof. Lai's lab in the School of Electrical, Computer and Energy Engineering, graduate students will be exposed to and possibly develop an interest in this modern and rapidly evolving sub-field of machine learning with broad applications.
Philip Mauskopf Experimental Cosmology, Particle, and Astrophysics Design study for an Axion Detector Axions are particles (proposed to exist by Frank Wilczek) that explain a symmetry in strong interactions and are a candidate for dark matter in the universe. We are working with an international collaboration to design a next generation detector that will be capable of exploring much more of the possible discovery space for axions than has been attempted so far. The design involves simulations of electromagnetic structures with 3D tools like Ansoft HFSS, calculations of properties of superconducting wires under different conditions and design of quantum limited RF amplifiers and single photon detectors.
Andrei Belitsky Theoretical Cosmology, Particle, and Astrophysics Conformal operator product expansion for correlation functions The project is designed for a student who wants to learn basics of partial wave expansion in conformal field theories as a tool to study observables. Prior knowledge of quantum field theory is required.
Siddharth Karkare Experimental Cosmology, Particle, and Astrophysics, Nanoscience and Materials Physics Development of the 200 kV cryogenically cooled DC electron gun The Photoemission and Bright Beams lab headed by Prof. Karkare is building a 200 kV, cryogenically cooled DC electron gun. The student will assist with various aspects of developing this gun which will be used for fundamental studies of future electron sources and developing ultra-bright electron beams for particle accelerator and electron microscopy applications. This project will give you hands-on experience with various technologies related to high voltage, cryogenic cooling, ultrahigh vacuum and electron beams. This project can be continued towards your the PhD dissertation.
Samuel Teitelbaum Experimental Nanoscience and Materials Physics Coherent X-ray scattering of Emergent Order How does an ordered state like a crystal “choose” its orientation (e.g. crystal axes) out of an isotropic system like a liquid or glass? This is one of the key questions in condensed matter physics, and yet is tricky to address directly, because the spontaneous fluctuations that give rise to these ordering events are not usually reproducible. We are trying to experimentally access these events, or understand them if they are not obviously visible in real-time.



One system were this might be possible is where the “atoms” are not atoms at all, but nanoparticles of heavy elements like gold and lead sulfide. We are interested in forming “strongly coupled superlattices” of these materials. Much in the same way that atoms arrange themselves in a crystal, nanocryatals can arrange themselves in a lattice (thus a crystal of crystals, or “superlattice”. The “strong coupling” comes about if the material connecting the nanocrystals is conductive enough that the nanocrystals can exchange electrons, forming delocalized orbitals and enabling conductivity. These superlattices are promising for next-generation electronics, energy harvesting, and more, because the properties of the “crystal” can be tuned by the size, shape, and coupling strength of the nanocrystals in ways not possible with traditional crystals. However, forming these materials remains a challenge, and we need to understand more about how these superlattices form, and how the interaction between individual nanoparticles (i.e. the effective potential) gives rise to an ordered state in order to unleash the potential of these materials.



To get more insight into the mechanism of superlattice formation, we use a variety of x-ray techniques, such as small angle scattering and x-ray correlation spectroscopy to investigate how the crystals grow, what defects are present in fully formed crystals (and how they anneal away), and where we lie on the phase diagram to extend this process to more diverse systems. This project will involve analysis of beamline data from beamlines like LCLS, NSLS-II, and SSRL, as well as preparation and proposal writing for upcoming experiments.
Oliver Beckstein Theoretical Biological and Soft Matter Physics Sampling rare events in molecular dynamics with the weighted ensemble method Molecular dynamics simulations have emerged as one of the major computational approaches to gain deeper insights into the structure and function of biomolecules. However, the suffer from a major limitation in that even with current supercomputers, they can only sample events on the microsecond time scale even though many biologically relevant events such as conformational changes may happen only every hundreds or thousands of microseconds. An example is the rate of localized changes in electrostatic interactions in sodium/proton antiporter membrane proteins that appear to differ by orders of magnitude at room temperature between proteins from bacteria living a standard temperatures versus bacteria living in hot springs. In this project you will develop a computational workflow to apply the weighted ensemble method, a rare event sampling technique, to quantitatively model the dynamics of the electrostatic interactions and to investigate the reason for their temperature-dependent behavior.

Alexandra Ros Experimental Biological and Soft Matter Physics, Nanoscience and Materials Physics Exploiting novel bioanalyte migration mechanisms as the microscale The Ros lab is interested in exploiting the microenvironment to develop novel migration mechanisms for bioanalytes (https://biodesign.asu.edu/alexandra-ros). We employ tailored mirofluidic devices to induce migration mechanisms that can otherwise not be accomplished in the macro world. In most cases, we combine a suitable geometry of the micro devices with electrical potentials and analyte flows to induce selectivity between bioanalytes such as differently sized DNA strands or differently sized organelles. In this project, students will design microfluidic devices for separation applications and study the response of selected bioanalytes to applied forces. The novel separation approaches will help to improve disease diagnostics and fundamental studies of disease origin. This is an interdisciplinary project ideally suited for students with a broad interest including biophysics, engineering and chemistry.
Sara M. Vaiana Experimental Biological and Soft Matter Physics Dynamics of internal contact formation in the intrinsically disordered protein NTAIL from the Measles virus

RNA viruses such as SARS-CoV-2 or the Measles virus, pack their genetic information in the form of an RNA strand, which is wrapped around the nucleoprotein (N), which in turn assembles into a helical structure known as nucleocapsid. In order for such viruses to replicate, the genetic code of the RNA needs to be accessed and read by a specific protein complex. In the Measles virus, an intrinsically disordered portion of protein N, called NTAIL, which protrudes from the nucleocapsid, is responsible for setting of such process, by binding to its binding partner, the phosphoprotein (P). Very little is understood about the highly dynamic process of folding upon binding, between an intrinsically disordered protein (IDP) and its folded binding partner.

In this project the student will use a nanosecond laser-pump spectroscopy technique developed in our lab, based on photo-induced electron transfer (PET), to quantify internal contact formation times of NTAIL free in solution, and bound to its binding partner. Direct comparison between experiments, theoretical polymer models, and molecular simulations will be used to identify key protein interactions, and key dynamical properties, which regulate the folding upon binding of NTAIL to protein P.



The long term goal of this project is to identify, through novel experiments and theoretical methods, the underlying physics principles that govern intrinsically disordered protein (IDP) dynamics, and how this regulates biological function. In this project, students will have the opportunity to collaborate with leading groups in theoretical modeling and molecular simulations based in the US and in Europe (University of Marseille and Max Plank Institute, Goettingen).

Sara M. Vaiana Experimental Biological and Soft Matter Physics Intrinsically Disordered Proteins: combining polymer physics theory and nanosecond laser pump spectroscopy to study this new class of proteins. Intrinsically Disordered Proteins (IDPs) are a recently discovered class of proteins which lack a well defined three dimensional structure in solution. Unlike natively folded proteins which often function as enzymes, IDPs play a crucial role in cell signaling, regulation and control. Because IDPs sample many conformations on short spatio-temporal scales, new approaches and novel high resolution experimental techniques are needed to study their properties.



In this project the student will learn about this newly emerging field of research and the challenges it poses both theoretically and experimentally. Polymer physics theory and light scattering techniques will be used, in combination with a newly built nanosecond laser pump spectrometer, to characterize the disordered states of biologically relevant IDPs in solution. The student will be trained in both theoretical and experimental aspects of the project while working in the newly renovated Laser Spectroscopy and Biophysics Laboratory (LSBL) in a closely mentored group setting.



The project involves:

-Operating home-built laser-pump instrumentation (optics, lasers, oscilloscopes, LabView interface).

-Preparing IDP samples for measurements (no biology required, but “good hands” in the lab and attention to sample prep. details)

-Data analysis using MatLab, Python, or Mathematica

Skills acquired will be useful for a career in either industry or academia.



References:

-S.M. Vaiana, R.B. Best, W-M Yau, W.A. Eaton and J. Hofrichter. Evidence for partially structured state of the amylin monomer. Biophys. J. 97, 2009.

-S.M. Sizemore, S. M. Cope, A. Roy, G. Ghirlanda and S.M. Vaiana. Slow internal dynamics and charge expansion in the disordered protein CGRP: a comparison with amylin. Biophys. J. 109, 2015.



Sara M. Vaiana Experimental Biological and Soft Matter Physics Liquid-Liquid Phase Separation: a mechanism of spontaneous order formation in highly disordered systems Liquid-liquid phase separation (LLPS) is a well known phase transition that can occur in binary mixtures and depends on the interactions between the elements in the system. The physics description of such a phase transition is surprisingly independent from the details of the system, and displays universal properties. In fact, it applies to systems as different as ferromagnets, polymer mixtures and gels, and (as recently discovered) proteins in living cells.

In the past, we have been studying the physics of LLPS in protein solutions. This leads to the formation of liquid droplets, within the main liquid, containing higher than average protein concentration. We argued that this mechanism of spontaneous symmetry breaking must be exploited by nature in living systems to create compartments where specialized functions can take place. This may very well be at the origins of life itself. This hypothesis was recently confirmed by the direct observations of liquid-like organelles inside the cell, which do not have a surrounding membrane, but behave like spontaneously forming liquid-droplets.



In this project, the student will apply scattering and other techniques developed in our lab, to study the physics of LLPS in proteins of high biomedical importance. By combining experiments and theory, we will measure molecular interaction parameters in solution. Our goal is to directly measure how disease mutations in proteins alter protein-protein, protein-water, and water-water interactions, leading to protein aggregation diseases such as ALS, and other neurodegenerative diseases. Along the way, we will learn some new exciting physics, on how LLPS and anomalous fluctuations near a phase transition, affect nucleation processes. Students will have the opportunity to collaborate with leading groups in theoretical modeling and molecular simulations based in the US and in Europe.



This project involves:

-Using advanced scattering methods to structural and dynamical properties of liquids, their concentration fluctuations, correlation length, and critical behavior.

-Preparing protein samples for measurements (no biology required, but “good hands” in the lab and attention to sample preparation details)

-Data analysis using MatLab, Python, or Mathematica

Skills acquired will be useful for a career in either industry or academia.



References:

-Spinodal lines and Flory-Huggins free energies for solutions of human hemoglobins HbS and HbA. Biophys. J. 60, 1991.

-S.M. Vaiana, M.B. Palma-Vittorelli and M.U. Palma. Time scale of protein aggregation dictated by liquid-liquid demixing. Proteins, 51, 2003.

-S.M. Vaiana, M.A. Rotter, A. Emanuele, F.A. Ferrone, and M.B. Palma-Vittorelli. Effect of T-R conformational change on sickle-cell hemoglobin interactions and aggregation. Proteins, 58 2005.

Jeff Yarger Experimental Biological and Soft Matter Physics, Nanoscience and Materials Physics Polyamorphism and Related Amorphous-Amorphous Phase Transitions. Fluid polyamorphism, the existence of two distinct amorphous structures in a single-component condensed fluid, is a surprisingly ubiquitous, yet poorly understood, phenomenon. It is either found or predicted for helium, sulfur, carbon, phosphorous, silicon, cerium, tin tetraiodide, tellurium, and hydrogen. This phenomenon is also hypothesized for deeply supercooled water, presumably located a few degrees below the empirical limit of homogeneous ice formation. Prof. Yarger’s research group along with collaborators (Princeton University and University of Maryland) are developing and verifying a generic phenomenological approach to describe polyamorphism in a single-component fluid, either in the presence (supercooled water, silicon, silica, etc.) or absence (helium, sulfur, phosphorous) of fluid-fluid phase separation. The concept underlying polyamorphism phenomenology is equilibrium interconversion between alternative molecular or supramolecular structures. The phenomenology will be verified by simulations of molecular models of various systems exhibiting fluid polyamorphism and by experiments (calorimetry, optical microscopy, DLS, IR and Raman spectroscopy, transmission electron microscopy.)
Wenwei Zheng Theoretical Biological and Soft Matter Physics Computational modelling of intrinsically disordered proteins My lab is interested in investigating the physics principles of intrinsically disordered proteins and their formation of biomolecular assemblies.

The research rotation project can be in one of the following directions including:

1. Coarse-grained models for intrinsically disordered proteins;

2. Polymer physics model for conformational properties of intrinsically disordered proteins;

3. Model for interpreting experimental data of disordered proteins.

Please check my group website http://www.public.asu.edu/~wzheng38/index.html and feel free to contact wenweizheng@asu.edu for more information.
Philip Mauskopf Experimental Nanoscience and Materials Physics Superconducting single photon detectors Superconducting nanowires detect optical and near infrared photons with timing resolution of a few picoseconds and maximum count rates up to 10s of MHz. The next generation space-based and ground-based telecommunications systems (i.e. the quantum internet) will need single photon detectors with timing resolution ~ 1 ps and count rates up to 10s of GHz. This project is to design a new superconducting single photon detector that has an increase in count rate and timing resolution of over an order of magnitude compared to current devices using kinetic inductance pulses and read out with a superconducting quantum limited parametric amplifier.
Philip Mauskopf Experimental Nanoscience and Materials Physics Superconducting qubits for high frequency quantum computing Quantum computers based on superconducting devices (qubits) are rapidly being developed into systems with 10s-100s of qubits. These qubits are coupled superconducting microwave resonators operating at frequencies up to about 10 GHz. This project is to design and test a qubit that works at 100 GHz. This would enable operation at higher temperatures than existing quantum computers and enable larger scale integration. Some design, fabrication and testing would be part of the project.
Maxim Sukharev Theoretical Nanoscience and Materials Physics Quantum optics at nanoscale interfaces Several graduate level projects pertaining to DOD sponsored program on nonlinear quantum optics are available. See our recent review talk: https://www.youtube.com/watch?v=2WZo7ujUfjQ



More on the subject and ongoing collaborations can be found at: http://sukharev.faculty.asu.edu



Please, send your inquires at maxim.sukharev@asu.edu
Kevin Schmidt Theoretical Nanoscience and Materials Physics Quantum Monte Carlo This research area uses numerical methods to solve a class of quantum many-body problems. One possible problem would be to study calculations for accurately describing p-f wave superfluid pairing contributions in neutron star matter.
Robert Kaindl Experimental Nanoscience and Materials Physics Broadband Ultrafast Probes of Quantum Materials Our research explores fundamental and applied physical phenomena in correlated and nanoscale quantum materials using advanced ultrafast tools. Femtosecond light pulses provide unique opportunities to perturbatively resolve fast dynamics and interactions in these materials, and they can drive materials into new transient or metastable regimes via intense excitation. At present we are developing a new laboratory for tailored driving and detection of quantum and collective excitations using broadband terahertz, mid-IR, and visible light pulses as well as probing of electronic structure dynamics via time- and angle-resolved photoelectron spectroscopy (trARPES).

This effort provides many project opportunities, spanning initially the range from literature research and simulations, fabrication and characterization of 2D and correlated samples, to the design and development of nonlinear optical setups in the terahertz, mid-IR, and extreme-UV regimes. Moreover, our research is closely aligned with the ASU CXFEL program making possible laser-science projects connected to the femtosecond X-ray source and pump-probe setup that is currently under commissioning. At a later stage, the student can also get involved with the first time-resolved THz/mid-IR and ARPES experiments in our group to investigate the dynamics of quasi-particles and order parameters as well the properties of light-induced phases in two-dimensional, topological, and superconducting materials.

Samuel Teitelbaum Experimental Nanoscience and Materials Physics Visualizing complex structural motion in layered materials Two layered transition metal dichalgogenides such as TaS2, TiSe2 and TaSe2, possess fascinating properties arising from a combination of their two-dimensional nature and strong electron-phonon coupling (meaning structure and function are closely related). Similarly, the rare-earth tritellurides ReTe3 (Re = La, Nb, Er, etc.) possess a zoo complex charge density wave states. How can we control the ordered states (e.g. charge density waves and superconductivity) in these materials, and manipulate them? We are particularly interested in the photo-sensitivity of the charge density waves states in these materials, and how their manipulation with light will teach us more about the underlying physics that controls their phase diagrams.



Our main tool for study of light-driven modification of the CDW states is optical pump, x-ray probe experiments at x-ray free electron lasers. This rotation project will involve preparation for an upcoming experiment at LCLS in the fall, as well as reviewing and analyzing data from previous optical pump, x-ray probe experiments at x-ray lasers around the world. You will (1) review the literature and previous experiments on these materials to identify incisive experiments we can perform, (2) use Python and MATLAB code to analyze data from previous experiments and begin building physical models for these systems (3) prepare for upcoming experiments using the codebase you’ve built from data analysis. If the rotation continues through the spring, we expect attendance and participation in future experiments and optical ultrafast spectroscopy on these systems. This project could be extended into a full PhD project related to photoinduced modification of interatomic forces of charge density waves.
Robert Ros Experimental Biological and Soft Matter Physics Properties of Chromatin of Cancerous and Non-cancerous Cells While cancer is mostly viewed as a genetic disease and characterized by genetic markers and expression of mutant proteins, there is considerable evidence that there is more to cancer than somatic mutations. For example, the first signature looked for by a pathologist is a grossly aberrant cell nucleus. Chromatin compaction and structure play a major role in the overall nuclear structure. We compare chromatin compaction, structure and gene expression for non-cancerous and cancerous cells by using a combination of salt fractionation, DNA quantification by spectroscopy, atomic force microscopy, and sequencing.
William Terrano Experimental Cosmology, Particle, and Astrophysics Testing Fundamental Physics with Nuclear Spins Our research involves studying fundamental physics using precision measurements of nuclear spin states. We are currently building a new laboratory and experimental apparatus on campus, with the design goal of a thousand-fold improvement in energy sensitivity. Doing so will open a new regime in measuring the standard model of particle physics, including searches for new forces, dark matter and testing the symmetries of the standard model.

This effort requires combining several cutting-edge technologies, from cryogenic SQUID (superconducting quantum interference devices) to nuclear spin optical pumping and quantum control. This provides many project opportunities, with initial projects in literature research, simulations and design of the experimental apparatus. Down the road, the student would develop and implement the first use of quantum control and decoupling in such an experiment, and finally use the apparatus in a world-leading fundamental physics measurement, whether of Dark Matter properties, electric-dipole-moments, or a new force.

Banu Ozkan Experimental Biological and Soft Matter Physics Unravelling physical principles of the second secret of life Allostery is a process of remote regulation of functional activity by which biological macromolecules (mostly proteins) transmit the effect of binding at one site to a distal functional site through protein dynamics. Allostery has even been referred to as the ‘second secret of life’, and has remained as central focus in biophysics. A quantitative description of allostery is fundamental to understand most processes beyond the molecular level, such as cellular signaling and information propagation in cell.. Thus, it is the critical phenomenon to bridge different length scales in biology. In this rotation project, the goal is to explore the physical principle of allostery through computational and information theory based method. The goal is to elucidate how allostery shapes information progation in cell. The student will closely work with PI and the lab members on a on going project and will learn new computational tools.



Quan Qing Experimental Biological and Soft Matter Physics, Nanoscience and Materials Physics DNA manipulation and sequencing with nanopore devices DNA molecules carry the key information of cells. Nanopore sequencing represents the most promising direction for rapid single-molecule level sequencing techniques, which drives the advancements in accurate and affordable gene analysis to bring paradigm shifts in biology and health care, including, for example, genomic studies, cancer research and personalized medicine. Nanopore sensing requires no complex labeling or DNA amplification, which makes it possible to work with low copy numbers of molecules, and the long read length could substantially help the alignment and assembly of highly repetitive DNAs, which have been a persistent challenge for existing high-throughput sequencing techniques. In this project, we are going to explore a new strategy to construct nanopore device integrated with a pair of quantum tunneling electrodes such that for every DNA molecule that moves through the nanopore, a tunneling signal can be detected for high resolution sequencing. We are going to use 3D printing, CNC machining, and customized electronics to construct a nanofluidic platform that can be used to deliver different biological samples to a nanopore chip for single-molecule detection and sequencing.
Quan Qing Experimental Biological and Soft Matter Physics Modulating cell behaviors using electric field and nano-topographical features Many receptors at the cell membrane can trigger the extracellular-signal-regulated kinase, which activates a variety of downstream proteins, including other protein kinases and transcription regulators in the nucleus that are important to the cell cycle. The ERK signaling pathway regulates many stimulated cellular processes and plays an important role in cell survival, motility, differentiation and proliferation. Recent studies have shown that external electric field (EF) stimulation can also activate ERK. This provides a powerful way to modulate cell development and behaviors, and has demonstrated great potential in assisting wound healing, cancer therapies, as well as stem cell therapies.In addition, nanoscale topographical features on the substrate can also trigger cell response that involves a network of signaling pathways and change the behaviors of cells such as migration and proliferation. In this project, we are going to construct a hybrid system that can integrate programmable EF and nano-topographical perturbations on a cell culture and imaging platform. We are going to evaluate how global and local EF, and nano-topographical features can be used to change the behaviors of cells, for a better understanding of the coupling between the electric, biological and mechanical signaling networks in living cells.
Petr Sulc Theoretical Biological and Soft Matter Physics, Nanoscience and Materials Physics Principles of self-assembly Self-assembly is a process ubiquitous in all living systems. In biomimetic nanotechnology, we design interactions between nanoscale particles to assemble complex mutlicomponent structures, creating nanostructures and self-assembled materials with applications to photonics, molecular factories, diagnostics and therapeutics. This research project will explore the solutions to the inverse problem: "Given a target structure, how do we design individual componets that self-assemble into that target object and avoid undesired alternative assemblies?" The project will harness methods of statistical physics, computer science and molecular simulation to address these questions. Even though we will use abstract models to answer these questions, the theoretical work will be done in close interactions with experimental DNA nanotechnology groups, and successful designs can be then experimentally realized and verified.
Steve Presse Theoretical Biological and Soft Matter Physics Inference on stochastic processes from complex cellular environments one photon at a time using Data Science Life unfolds within the cellular nucleus one molecule at a time as these molecular actors interact to undertake their vital tasks (e.g., gene transcription). Yet resolving the many body physics and stochastic dynamics of these interacting components from imaging and spectroscopic data is fundamentally limited by intrinsic sources of noise be they of thermal, quantum mechanical and other origins. Here we develop new mathematical algorithms, inspired by state-of-the-art Data Science, to unravel the relevant many-body physics one photon detection at a time.
Steve Presse Experimental Biological and Soft Matter Physics Bacterial hydrodynamics Bacterial predators present an interesting conceptual challenge. They locate their bacterial prey by propelling themselves through viscous fluid in search for prey. Our own experiments reveal that unique dynamical features, such as being trapped in geometric orbit around large surface defects, are driven by hydrodynamics. This search strategy raises questions as to how bacteria adapt their energetically demanding propulsion strategy in the absence of cues from prey. Here we explore the interplay between bacterial hydrodynamic energy expenditure and velocity adaptation strategies relevant to bacterial predation in extreme environments.
Robert Nemanich Experimental Nanoscience and Materials Physics Interfaces of Ultra Wide Bandgap Semiconductors and Dielectrics Ultra wide bandgap semiconductors are now projected to be crucial for the future electricity grid, which will combine renewable energy sources, battery storage, bidirectional power distribution and DC and AC networks and transmission. High voltage electronics based on ultra wide bandgap materials such as diamond, boron nitride and aluminum nitride are central to achieving this goal. This research rotation project will employ photoemission spectroscopy to measure interface properties of wide bandgap oxide layers on doped diamond. The results will be important for design and fabrication of a new generation of power transistors.