CPLC / Biological Physics Seminar Friday, Feb 21st: Rhuobo Zhou

2/21/2020 11:15:28 AM

CPLC Seminar: "Visualizing biomolecular interactions at single-molecule and single-cell levels"

144 Loomis, Friday, Feb 21, 2PM

Ruobo Zhou, Harvard University

 Biomolecular interactions are at the root of all biological processes and define the molecular mechanisms of how these processes are accomplished in both physiological and pathological conditions. Recent advances in single molecule detection and super-resolution fluorescence microcopy have uncovered previously unknown properties of biomolecular interactions, including multivalency, transiency, and heterogeneity, and revealed the organizational principles governing the compartmentalization of functional biomolecular interactions in cells and how such compartmentalization and organizations become dysregulated in diseases. In this talk, I will first discuss my postdoctoral work, where I used mass-spectrometry-based analysis and super-resolution imaging to dissect the protein-protein interactions at the plasma membrane of neurons, and discovered that a newly identified membrane-associated periodic skeleton (MPS) structure can function as a signaling platform that coordinates the interactions of signaling proteins at the plasma membrane of neurons. In response to extracellular stimuli, G-protein coupled receptors, cell-adhesion molecules, receptor tyrosine kinases can be recruited to the MPS to form signaling complexes at the plasma membrane, and such recruitment is required for downstream intracellular signaling. This work not only reveals an important, previously unknown function of the newly discovered MPS structure, but also provides novel mechanistic insights into signal transduction in neurons. I will then discuss my graduate work, where I developed a hybrid single molecule technique combining single molecule FRET and optical tweezers, and applied this technique to probe the sub-molecular dynamics of protein-DNA interactions in various biological systems involved in DNA replication, repair and recombination.

2/6/2014 8:00:00 AM Siv Schwink

Jun Song is a theoretical biological physicist with joint appointments in the Department of Physics and the Department of Bioengineering. His research program in computational biology and biomedicine leverages the methodologies and tools of physics and mathematics to discover how transcription factors, chromatin structure and non-coding RNAs regulate gene expression. Song is particularly interested in the genomic study of cancer. His ongoing research has implications for prognosis and treatment of cancer, in particular of malignant melanoma, one of the deadliest cancers.

“In my field of research, it’s easy now to produce 40 gigabytes of data from one experiment. Using DNA sequencing techniques, it’s possible to generate several terabytes of data just for one patient. I use statistical and mathematical tools to overcome the challenge of analyzing and integrating such large data sets.”

Song looks forward to collaborating with other theorists in both biophysics and physics at Illinois—access to quantitative theorists and the University’s growing strength in bioengineering are largely what drew him to Urbana.

“I am very happy to be here,” shares Song. “Being able to teach and recruit students who are trained in physics will allow me to develop diversity in my research program. That’s very attractive to me, and I like the interactive ‘Urbana style’ approach to collaborative research.”

Prior to joining the faculty at Illinois, Song held an appointment as associate professor in the Department of Epidemiology and Biostatistics and in the Department of Bioengineering and Therapeutic Sciences at the University of California at San Francisco, where he advised students within the biomedical sciences graduate group, the biological and medical informatics graduate group, and the developmental and stem cell biology graduate group.

Song joins the faculty at Illinois as a Founder Professor. His primary laboratory is at the Institute for Genomic Biology. He brought two postdocs with him from UCSF to Illinois. Tomas Rube joined Song’s lab in 2012. He earned his doctoral degree from Stanford University studying theoretical high energy physics and switched to the study of genomics after graduating. Miraslav Hejna received his doctoral degree from Princeton University, studying high energy and theoretical condensed matter physics. He joined Song’s lab in 2013.

A third postdoc appointment followed Song to Illinois: Courtney Onodera, who earned her doctoral degree in bioinformatics at the University of California at Santa Cruz, will finish her research under Song this academic year while remaining at UCSF.

Song has already attracted students to his lab who want to engage in interdisciplinary research. Given his own background, he is very interested in helping young quantitative scientists find their way into biology. Song also puts a high priority on teaching quantitative and computational approaches to students of biology.

“I believe Illinois can lead in this area of research, because it has a very strong presence in computational physics, physics, and biological physics,” comments Song.

Song plans to develop an educational program that crosses disciplines. He intends to take advantage of a teaching release this spring to develop new cross-listed courses that will teach state-of-the-art technologies and methodologies in computational genomics and computational biology.

“I hope to bring people together from different departments and disciplines, including mathematics, physics, statistics, and biology. I plan to introduce educational research projects for graduate students and upper-level undergraduate students.”

Song received his bachelor’s degree in physics from Harvard University in 1996, graduating summa cum laude, and went on to receive a master of advanced study degree in mathematics from the University of Cambridge in 1997, graduating with distinction. He received his doctoral degree in physics from the Massachusetts Institute of Technology in 2001 under thesis adviser Gang Tian of the Department of Mathematics.

Prior to his appointment at UCSF in 2009, Song held a position as a Charles B. Morrey, Jr. Assistant Professor of Mathematics at the University of California at Berkeley (2001–2003); held an appointment as instructor and research fellow in medical physics and as research fellow in biostatistics and computation biology at Harvard University (2003–2005); and was a member of the Institute for Advanced Study’s Simons Center for Systems Biology (2007–2009).

Song is the recipient of many honors, including a National Science Foundation CAREER Award (2011) and a Sontang Foundation Distinguished Scientist Award (2011). He was also awarded a National Science Foundation Fellowship (1997).

In addition to his academic research achievements attested by a long list of invited talks and a longer-still list of publications in peer-reviewed journals, Song has shown a strong commitment to service. Song served as an expert reviewer for the US-Israel Binational Science Foundation (2010-2014) and served as a review panel member of numerous NIH study sections.