Liangcai Gu

Liangcai Gu in a lab

My lab develops and uses integrated approaches for spatiotemporal, multimodal measure and control of complex living systems from molecules to tissues. We recently created protein-based sensors and actuators for chemical sensing and chemogenetic or optogenetic manipulation of cell behaviors in behaving animals. We developed polony gel (clonal DNA cluster array of ≤ 1-µm features)-based spatial barcoding and sequencing to spatially map single-cell transcriptomes and proteomes in morphologically intact tissues to study physiological, pathological, and pharmacological changes. Techniques frequently used in current projects include protein display and high-throughput screening, polony gel fabrication and sequencing, Pixel-seq, SMI-seq, mass spectrometry, and fluorescence imaging. Read More

Christina Savvides

Christina is a graduate student in David Bakerss lab at the Institute for Protein Design as well as a trainee in the University of Washington’s Medical Scientist Training Program. She aims to use computational methods to design new therapeutics that will more precisely modulate the immune system. Christina holds a B.S. in Biology and an M.S. in Biomedical Informatics from Stanford University. Read More

Davi Nakajima An

As a graduate student in Dr. Frank DiMaio’s lab, Davi is developing machine-learning methods for modeling proteins and their interactions with other molecules. This research will enable new ways of analyzing and designing biomolecules. He holds a B.Sc in Computer Science with a Minor in Biochemistry from Georgia Tech. He was awarded the UW’s College of Engineering Dean’s Fellowship. Read More

Peik Lund-Anderson

Peik is a graduate student in David Baker’s lab, where he is designing novel proteins for light-driven catalysis and electron transport in artificial photosynthetic systems. This research could enable them to harness light energy to produce fuels, fix CO2, and synthesize other chemical products. He holds a B.S in Molecular Biology and Biotechnology from the University of Idaho. Read More

Paul Kim

Paul is a graduate student at the Baker Lab, working on development of novel deep learning methods for protein design. Specifically, he is working on methods for generation of novel DNA binding proteins. Previously Paul at Bayer (Berlin) and the Simons Machine Learning Center (New York) in machine learning research and development roles. Paul received a B.A. in Statistics from UC Berkeley. Read More

Jacob Gershon

Jacob is interested in using the principles of synthetic biology and protein engineering to address prominent issues facing our world including environmental rehabilitation, clean water, and the sustainable manufacturing of textiles, goods, and chemicals. As a graduate student in the Baker lab, Jacob is working on developing deep generative models for protein design, hoping to someday use these tools to design new materials that support sustainable fashion. Traditional textile manufacturing generates toxic byproducts, but this may be alleviated with the use of de novo enzymes. Read More

Adam Chazin-Gray

Adam Chazin-Gray is a graduate student in David Baker’s lab. He is using computational protein design to expand the tools to communicate between cells. His project combines aspects of protein design, and synthetic biology to design synthetic cell signaling systems. This research has potential applications in treating a wide variety of human diseases, including many types of cancer and drug-resistant bacterial infections. He holds a B.A. in Biology & Neuroscience from Oberlin College. Read More

Naveen Jasti

Naveen Jasti portrait

Naveen is interested in using synthetic biology to develop biologic solutions in global health and is mentored by Neil King. He hopes to design protein nanoparticles that further vaccine development and provide insight into the role of specific interactions during immune responses. He received a B.S. in Cell and Molecular Biology from the University of Michigan.   Read More

Ivan Vulovic

Ivan Vulvonic portrait

As a graduate student in David Baker’s lab at the Institute for Protein Design, Ivan Vulovic developed new computational methods and strategies to design protein assemblies that address modern challenges. This work has already been applied successfully to develop several new types of protein nanocages. One of the leading use cases involves integration of viral antigens into these designed protein nanoparticles, a concept which may soon yield a general-purpose and modular vaccine platform. Unlike existing vaccine technologies, designed nanoparticle platforms may be rapidly re-engineered to confront novel biological threats through modular replacement of their surface proteins. Read More

Hao Shen

Hao Shen portrait

In 2019, Hao became the first student to graduate from our program. As a graduate student in the Baker lab, Hao designed protein-based building blocks that can self-assemble into protein filaments. His work was published in the journal Science and will potentially allow researchers to create entirely new materials not found in nature. He continues to study the emerging field of designed, self-assembling materials in the Baker lab as a postdoc. Read More