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"Outreach and Training" activities for RBVI annual report and competitive grant renewals
This wiki encompasses all RBVI outreach and training activities, not just those related to Chimera.
The overall goal of the training component of the RBVI is twofold: to improve the general understanding of our technologies in the appropriate population and to create a cadre of biomedical researchers trained in the technology so that they can effectively apply it in their own research.
Each entry below should include the following:
- Title of event (e.g., EMBO electron microscopy workshop)
- Nature of training (e.g., hands-on use of Chimera volume visualization tools)
- Date(s)
- Location
- RBVI staff involved
- Hours of instruction (includes lectures, labs, and prep time)
- Number of attendees
- Comments/remarks/related URLs (e.g., students brought their own data sets for analysis)
2011/2012 report
May 19, 2011
Cytoscape User Tutorial given at the Cytoscape Retreat in San Diego. Had about 60 participants. Total prep time was about 10 hours.
- Scooter Morris
May 24, 2011
Interview and HIV capsid demonstration for an NPR Future Lab podcast sponsored by Intel Research on molecular visualization. Showed NPR reporter Deirdre Kennedy 3d stereo visualization and answered questions. Prep and delivery 5 hours.
- Tom Ferrin, Elaine Meng, Tom Goddard
June 8, 2011
Cytoscape and Proteomics. Training class given at UCSF to 8-10 UCSF campus researchers doing proteomics, specifically using MassSpec-based approaches. Total prep time was 5 hours.
- Scooter Morris
June 23, 2011
HIV capsid demonstration given to 10 high school students from Mo' MAGIC program organized by UCSF Science and Health Education Partnership (SEP). Showed 3-d stereo visualization, space navigator, plastic models in visualization vault. Prep and delivery 5 hours.
- Tom Goddard
June 26 - July 1, 2011
Chimera fitting talk demonstrating global, sequential and symmetric fitting at 3D EM Gordon conference, 200 participants, New Hampshire. Also 2 hour Chimera question and answer session with 20 participants. Prep and delivery 20 hours.
- Tom Goddard
July 11-12, 2011
Cytoscape User Tutorial and Developer's Workshop at the Swiss Institute of Bioinformatics (SIB). 50 participants. Total prep time was 20 hours.
- Scooter Morris
July 15, 2011
Helped organize the Network Biology SIG at ISMB 2011 in Austria, Vienna. Total participants: 160.
- Scooter Morris
July 16, 2011
Gave a Tutorial on Network Biology and Cytoscape at ISMB 2011 in Austria, Vienna. Total participants: 35. Total prep time was 40 hours.
- Scooter Morris
July 18, 2011
Gave an invited talk on user interface development in the Data Visualization and User Interfaces workshop at ISMB. Total participants: 140. Total prep time was 40 hours.
- Scooter Morris
July 28, 2011
Hosted the COSMOS kids from UC Davis' Summer School for Math and Science. Viewed virus capsids in Chimera, influenza hemagglutinin conformational change. Total participants: 21. Total prep/organizational time: 20 hours.
- Scooter Morris
August 16, 2011
Bay Area Science Festival publicity event demonstrations for House of Representatives Minority Leader Nancy Pelosi and San Francisco Mayor Ed Lee. Showed HIV capsid visualization. Visualization Vault room. 10 guests and press. 4 hours preparation.
- Tom Goddard
September 20, 2011
Two hiv capsid visualization demonstrations, 30 minutes each, for 22 Swiss high school students who won the Swiss Science on the Move national science competition sponsored by Roche and Genentech. Arranged by Susan Jacobson at UCSF. Prep time 4 hours.
- Tom Goddard
September 30, 2011
35-minute presentation to >25 students in UCSF BP204, "Macromolecular Interactions and Assemblies" class. Included 5 min on history of Computer Graphics Lab, the remainder a Chimera demonstration: basic usage, morphing, viewing sequences, showing attribute values, building multimers, stereo. Prep time 16 hours including updating the previous year's presentation, testing with the current version of Chimera, rehearsing the demo, preparing handouts, working through the homework assignment with current version of Chimera and making a "cheat sheet" for the TAs of commands that could be used for that homework.
- Elaine Meng, Eric Pettersen, Tom Goddard
November 2, 2011
Bay Area Science Festival 20 minute demonstration of HIV capsid visualization for 10 Balboa High School students. Presented in visualization vault room.
- Scooter Morris
November 30, 2011
Hands-on Chimera tutorial at Purdue University. 90 minutes, 25 participants, 8 hours preparation. Organized by Michael Rossmann. Covered building a ParM filament using an EM map and Xray stucture.
- Tom Goddard
November 30, 2011
Structural Biology Seminar talk at Purdue University, by invitation of Michael Rossmann. 1 hour, 45 in audience, 16 hours preparation. Demonstrated hypothetical modeling of alpha crystallin and HIV capsid and RNA.
- Tom Goddard
December 1, 2011
Chimera hands-on training at Indiana University. 2.5 hours, 30 participants primarily undergraduates, 8 hours preparation. Organized by David Morgan. Covered alpha crystallin model building using Xray structures and an EM map. 90 minute follow-along tutorial, 60 minute question and answer session on all Chimera topics.
- Tom Goddard
December 6, 2011
Chimera demonstration for University of San Francisco biochemistry class. 30 minutes, 8 participants, 4 hours preparation. USF teacher Willie Melaugh. Showed pombe cell x-ray tomography and dipeptide epimerase enzyme structure which performs a step in recycling bacterial peptidoglycan cell wall.
- Tom Goddard, Elaine Meng
Past reports 2011, 2010, 2009, 2008, 2007
