Research in the Wojciech Zbijewski Lab — a component of the Imaging for Surgery, Therapy and Radiology (I-STAR) Lab — focuses on system modeling techniques to optimize the x-ray CT imaging chain. We’re specifically interested in: 1) using numerical models to improve the task-based optimization of image quality; 2) exploring advanced modeling of physics in statistical reconstruction; 3) using accelerated Monte Carlo methods in CT imaging; and 4) conducting experimental validation of such approaches and applying them to the development of new imaging methods.

The Wolberger Lab is interested in the structural and mechanistic basis for transcriptional regulation and ubiquitin signaling as it relates to the integrity and expression of the genome. We use x-ray crystallography, enzymology, cell-based assays and a variety of biophysical tools to gain insights into the mechanisms underlying these essential cellular processes.

Dr. Sohn's lab is interested in understanding how biological stress-sensors are assembled, detect danger signals and initiate stress response. Innate immunity is the first line of defense against invading pathogens in higher eukaryotes. We are using in vitro quantitative biochemical assays and mutagenesis and x-ray crystallography to investigate the underlying operating principles of inflammasomes, a component of the innate immune system, to better understand biological stress sensors.

The Fukunaga Lab uses multidisciplinary approaches to understand the cell biology, biogenesis and function of small silencing RNAs from the atomic to the organismal level. The lab studies how small silencing RNAs, including microRNAs (miRNAs), small interfering RNAs (siRNAs) and piwi-interacting RNAs (piRNAs), are produced and how they function. Mutations in the small RNA genes or in the genes involved in the RNA pathways cause many diseases, including cancers. We use a combination of biochemistry, biophysics, fly genetics, cell culture, X-ray crystallography and next-generation sequencing to answer fundamental biological questions and also potentially lead to therapeutic applications to human diseases.

The Berger Lab's research is focused on understanding how multi-subunit assemblies use ATP for overcoming topological challenges within the chromosome and controlling the flow of genetic information. A long-term goal is to develop mechanistic models that explain in atomic level detail how macromolecular machines transduce chemical energy into force and motion, and to determine how cells exploit and control these complexes and their activities for initiating DNA replication, shaping chromosome superstructure and executing myriad other essential nucleic-acid transactions. Our principal approaches include a blend of structural (X-ray crystallography, single-particle EM, SAXS) and solution biochemical methods to define the architecture, function, evolution and regulation of biological complexes. We also have extensive interests in mechanistic enzymology and the study of small-molecule inhibitors of therapeutic potential, the development of chemical approaches to trapping weak protein/protein and protein/nucleic acid interactions, and in using microfluidics and single-molecule approaches for biochemical investigations of protein dynamics.

Research in the Quantitative Imaging Technologies lab — a component of the Imaging for Surgery, Therapy and Radiology (I-STAR) Lab — focuses on novel technologies to derive accurate structural and physiological measurements from medical images. Our team works on optimization of imaging systems and algorithms to support a variety of quantitative applications, with recent focus on orthopedics and bone health. For example, we have developed an ultra-high resolution imaging chain for an orthopedic CT system to enable in-vivo measurements of bone microstructure. Our interests also include automated methods to extract quantitative information from images, including anatomical and micro-structural measurements, and shape analysis.