Selected Presentations and Dissemination Activities

RBVI researchers, collaborators, and staff members regularly present their work at workshops, conferences, and other scientific meetings to share results and techniques, to get input on development directions for existing and new tools, and to explore needs within the biomedical research community. The following table lists selected presentations. See also Engaging Youth in Science (below) and RBVI Workshops and Training.

Event	Date	Topics
Enzyme Function Initiative three-year review	May 29 2013	Vision for the Structure-Function Linkage Database for the next five years
Biocuration 2013 (International Society for Biocuration conference), Cambridge, England	Apr 5 2013	Protein function curation: linking sequence & chemical reaction spaces in the Structure-Function Linkage Database
VIZBI 2013 (Visualizing Biological Data), Broad Institute, Cambridge, MA	Mar 20 2013	Network visualization
Conference on Predicting Cell Metabolism and Phenotypes, SRI International, Menlo Park, CA	Mar 4 2013	Short introduction to the Structure-Function Linkage Database
Demos at UCSF for candidate graduate students, Integrative Program in Quantitative Biology	Feb 8, 15 2013	Chimera visualization of a variety of systems, including satellite tobacco mosaic virus, differential gear nanomachine, X-ray density maps, white blood cell 3D motion, HIV reverse transcriptase inhibitor binding
HCI (Human-Computer Interaction) Korea annual conference	Jan 31 2013	Visualization challenges in network biology
Biophysics seminar at the University of Texas Southwestern Medical School, Dallas, TX	Jan 29 2013	Protein similarity networks and the Structure-Function Linkage Database
Integrative Program in Quantitative Biology pizza talk, UCSF	Jan 21 2013	Introduction to the Structure-Function Linkage Database
Cytoscape retreat (Gladstone Institutes, UCSF)	Dec 13 2012	Protein similarity networks and dissemination using the Structure-Function Linkage Database
Lunch talk to faculty, Department of Bioengineering and Therapeutic Sciences, UCSF	Dec 2 2012	The Structure-Function Linkage Database and enzyme functional annotation
Enzyme Function Initiative meeting, San Francisco, CA	Nov 8 2012	New features in the Structure-Function Linkage Database
5th International Conference on Paraoxonases, Columbus, OH	Jul 16 2012	Research on the “nucleophilic attack 6-bladed beta-propeller” (N6P) superfamily, including network analysis and data dissemination using the Structure-Function Linkage Database
Lecture for UC systemwide Bioengineering Symposium, Berkeley, CA	Jun 21 2012	Computational guidance for protein design, including superfamilies, networks, and use of the Structure-Function Linkage Database
Enzyme Function Initiative meeting, San Francisco, CA	May 23 2012	Structure-Function Linkage Database progress and future plans
Demos for UCSF Alumni Homecoming	Apr 21 2012	Molecular visualization with Chimera, stereo graphics
NASA AbSciCon meeting, Atlanta, GA	Apr 18 2012	Enzyme evolution, networks, and the Structure-Function Linkage Database
Planetarium dome animation shown multiple times in the Biomolecular Discovery Dome at the Biophysical Society 56th Annual Meeting, San Diego	Feb 26-27 2012	Molecular machines that replicate HIV RNA, 6-min. animation with music and narration [HTML storyboard]
Demos at UCSF for VIP guests attending the Byer's Lecture	Feb 23 2012	Chimera visualization of HIV, stereo graphics
Demos at UCSF for candidate graduate students, Integrative Program in Quantitative Biology	Feb 10, 17 2012	Chimera visualization of HIV
Seminar at Institut Pasteur, Paris, France	Feb 2 2012	Network biology and Cytoscape
Stereo graphics demonstration for Li Ka Shing Foundation	Jan 9 2012	HIV core particle

Engaging Youth in Science

The RBVI is involved in several educational activities targeting students of high-school age and younger. The visual, interactive nature of molecular graphics combined with increasing awareness and interest of the general public in topics such as viruses and DNA make Chimera well suited for reaching out and engaging students of a wide range of ages and backgrounds.

Along these lines, Chimera has been included with educational materials produced by the Howard Hughes Medical Institute (HHMI). Our collaborator Dr. Joseph DeRisi (Hughes Investigator, Biochemistry and Biophysics, UCSF) was one of two scientists featured in the HHMI 2010 holiday lectures, Viral Outbreak: The Science of Emerging Disease. The lectures and associated materials are distributed to high schools throughout the country, and can be ordered online free of charge. With the advocacy of Dr. DeRisi, we were invited by HHMI to include a simple tool for viewing viruses in 3D with Chimera.

Selected presentations to student and educator groups:

Elementary/High School Group	Date	Topics
Students from Dewey High School (Oakland) as part of the iGem program, a partnership between UCSF and the San Francisco Unified School District	Mar 8 2013	Molecules of life, water, protein, DNA, drugs (THC and nevirapine)
California State Summer School for Mathematics and Science (COSMOS) students, UC Davis program	Jul 26 2012	Chimera visualization of HIV core and drug binding
Students from the iGem program, a partnership between UCSF and the San Francisco Unified School District	Jun 22 2012	Nanomachine and virus visualization, discussion of differences between human-designed and biological molecular machines
High school students in the Gladstone Summer Scholars (GSS) internship program	Jun 22 2012	HIV virus visualization; electron microscopy, atomic models of virus core and drug binding
High school students from the Mo' MAGIC program organized by the UCSF Science & Health Education Partnership (SEP)	Jun 22 2012	Nanomachine and virus visualization, discussion of differences between human-designed and biological molecular machines
Demo at UCSF for high school science teachers from the San Francisco Unified School District	Apr 23 2012	Molecular visualization with Chimera
Students from Balboa High School, Bay Area Science Festival event	Nov 2 2011	HIV capsid structure
Swiss high school students, winners of the Science on the Move science competition sponsored by Roche and Genentech	Sep 20 2011	HIV capsid structure
California State Summer School for Mathematics and Science (COSMOS) students, UC Davis program	Jul 28 2011	Virus capsid structures, influenza hemagglutinin
High school students from the Mo' MAGIC program organized by the UCSF Science & Health Education Partnership (SEP)	Jun 23 2011	Structure of HIV capsid and RNA [HTML]
SEP SMART team students from Lincoln and Galileo High Schools	Nov 18 2010 Dec 2 2010	Spirochetes, flagella, handedness, morphing, hydrophobic and electrostatic coloring to identify transmembrane and binding regions
California State Summer School for Mathematics and Science (COSMOS) students, UC Davis program	Jul 22 2010	DNA and chromosome structure
Celsius and Beyond summer camp students, ages 8-12	Jul 7,21 2010 Jun 9 2010	DNA and chromosome structure, light microscopy time series of dividing cells