The student will join a multi-disciplinary team investigating epigenetic processes, chromatin structure and gene regulation. This project will involve learning and applying biochemical, genetic and molecular biology strategies to build and characterize customized budding yeast (Saccharomyces cerevisiae) strains or mammalian cell lines for the investigation of evolutionarily conserved protein-protein interactions and post-translational modifications using state-of-the-art detection and quantification strategies. Biological targets may include histone modifying enzymes, histone modifications, histone variants and chromatin assembly and DNA replication factors.

Biological Characterization and Imaging, Cellular Biology, Genetics

Biochemistry, Biology, Biological Engineering or similar

General Chemistry required, introduction to molecular biology, biochemistry, genetics preferred.

Biochemistry

Ann Kirchmaier

Cancer is a major threat for humans worldwide, with over 18 million new cases and 9.6 million cancer-related deaths in 2019. Although most common cancer treatments include surgery, chemotherapy, and radiotherapy, unsatisfactory cure rates require new therapeutic approaches. Recently, adoptive cellular immunotherapies with chimeric antigen receptor (CAR) engineered T and natural killer (NK) cells have shown impressive clinical responses in patients with various blood and solid cancers. However, current clinical practices are limited by the need of large numbers of healthy immune cells, resistance to gene editing, lack of in vivo persistence, and a burdensome manufacturing strategy that requires donor cell extraction, modulation, expansion, and re-introduction per each patient. The ability to generate universally histocompatible and
genetically-enhanced immune cells from continuously renewable human pluripotent stem cell (hPSC) lines offers the potential to develop a true off-the-shelf cellular immunotherapy. While functional CAR-T and NK cells have been successfully derived from hPSCs, a significant gap remains in the scalability, time-consuming (5 or more weeks), purity and robustness of the differentiation methods due to the cumbersome use of serum, and/or feeder cells, which will incur potential risk for contamination and may cause batch-dependency in the treatment. This project thus aims to develop a novel, chemically-defined platform for robust production of CAR-T and CAR-NK cells from hPSCs.

Biological Characterization and Imaging, Biological Simulation and Technology, Cellular Biology

Chemical, Biological, Biochemistry or any related major

Previous experience with cell culture and molecular biology is a bonus, but NOT required.

Chemical Engineering

Xiaoping Bao

The pipes that deliver drinking water to individual taps develop into complex ecosystems. Most of the bacteria that live on these pipes and in the water are harmless, but several are capable of causing disease. For example, Legionella pneumophila is a bacterium that causes a potentially fatal pneumonia in immunocompromised individuals. It is thus critical to understand and ultimately control the ecosystem within these pipes. This work will contribute to policies (e.g., the minimum required temperature in a water heater) and technologies (e.g., auto-flushing sinks) that will limit needless disease.

In this project, the student will utilize bench scale experiments, a pilot-scale piping rig, and full-scale plumbing systems to test hypotheses regarding establishment of biofilm and relationships between biofilm and water over time. The student will collect and analyze water samples, using a variety of tools to fully characterize the physiochemical and biological dynamics within the system. They will also learn how to write a scientific report and will present it at the SURF symposium.

Biological Characterization and Imaging, Cellular Biology, Ecology and Sustainability, Engineering the Built Environment, Environmental Characterization

Biology, Environmental and Ecological Engineering, Civil Engineering, Environmental Science

Experience in a biological lab is desired but not required. All hands-on lab skills can be taught.

Agricultural and Biological Engineering

Caitlin Proctor

The increasing worldwide demand for vaccines along with the intensifying economic pressure on health care systems underlines the need for further improvement of vaccine manufacturing. In addition, regulatory authorities are encouraging investment in the continuous manufacturing processes to ensure robust production, avoid shortages, and ultimately lower the cost of medications for patients. The limitations of in-line process analytical tools are a serious drawback of the efforts taken in place. In line analysis of viral particles are very limited, due to the large time required for the current techniques for detection, qualitative and quantitative analysis. Therefore, there is a need for new alternatives for viral detection.

Big Data/Machine Learning, Biological Characterization and Imaging, Biological Simulation and Technology, Biotechnology Data Insights, Cellular Biology

Chemical Eng, Biological Eng, Biomedical Eng, Physics, Mechanical Eng

This project requires lab work and presence on campus, however, an online version can be offered to focus on coarse-grained modeling of proteins/cells.

Mechanical Engineering

Arezoo Ardekani

Neurons convert biochemical information (through binding of a neurotransmitter) to electrical signal (via action potential) and back to biochemical signal (through the release of neurotransmitters). These distinct and separable processes can be reconstituted in a synthetic neuron by using natural and engineered proteins, and a synthetic neuron platform can be used to understand the rules governing the emergence of the present morphology of a neuron and the architecture of the neuronal system. This project thus aims to construct a synthetic neuron with a modular design and a programmable synthetic neuronal network capable of recapitulating basic functions of a natural neuronal system (e.g., action potential, synaptic communication, and basic computation) and with a long-term vision of incorporating more advanced computation and potentiation.

Biological Characterization and Imaging, Biotechnology Data Insights, Cellular Biology

CHE/BME/ABE

Davidson School of Chemical Engineering

Chongli Yuan