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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)

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2013/2014 report

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June 25, 2013

Chimera tutorial at the University of Dundee. 25 attendees. 12 hours prep time.

• Scooter Morris

June 27, 2013

Seminar on RBVI Cytoscape apps: chemViz, structureViz, and the MPI app RINAlyzer at the University of Dundee. 40 attendees, 14 hours prep time.

• Scooter Morris

July 25, 2013

​Multiscale brain visualization for COSMOS science program high school students. Used 3-d LCD glasses, and leap motion and space navigator navigation devices in the RBVI Visualization Vault to show 20 students from Davis, California light microscopy of whole human brain, traced neurons, rat cortex electron microscopy, neural synapse tomography, acetylcholine receptor synapse ion channel, and snake neurotoxin. 45 minutes. 30 hours preparation. Organized by Toby Allen and Sarah Driver from UC Davis and Scooter Morris from UCSF.

• Tom Goddard, Scooter Morris

July 25, 2013

Half day of presentations at UCSF for COSMOS science program high school students. RBVI presented brain visualization (listed above). Presentations on computational docking by Matt Jacobson, drug development for third-world diseases by the Jim McKerrow lab, and tour of the UCSF Center for Advanced Technology by Joe DeRisi. Organized by Scooter Morris from RBVI and Toby Allen and Sarah Driver from UC Davis. 8 hours preparation.

• Scooter Morris, Tom Ferrin

August 27-28, 2013

Chimera workshop hosted by California Institute for Quantitative Biosciences (QB3) at UC Berkeley. Seven sessions over two days, including introduction to Chimera, structure analysis, sequence-structure tools, EM density analysis, publication images and movies, and master class. About 35-45 attendees (varied from session to session, 45 was maximum capacity). 40 hours preparation.

• Scooter Morris, Tom Goddard, Conrad Huang, Eric Pettersen, Elaine Meng, Greg Couch

August 29, 2013

Full-day Cytoscape workshop hosted by California Institute for Quantitative Biosciences (QB3) at UC Berkeley. Three sessions including introduction to Cytoscape, use cases, and master class. About 25 attendees. 15 hours preparation.

• Scooter Morris

September 19, 2013

Visualization and analysis talk for a dozen first year graduate students at Baylor College of Medicine showing ​brain imaging, and ​krait snake venom effects on acetylcholine receptor. 90 minute presentation via WebEx. Organized by Wah Chiu. 16 hours preparation.

• Tom Goddard

October 9, 2013

UCSF BP204,"Macromolecular Interactions" class: 35-minute presentation followed by 45 mins of the students (about 15 of them) doing a Chimera tutorial on their own laptops. The presentation included 5 mins on history of Computer Graphics Lab, 30 mins of Chimera demonstration: basic usage, finding H-bonds, morphing, viewing sequences, showing attribute values, building multimers, stereo. Prep time 10 hours including updating and rehearsing the presentation, updating and preparing handouts.

• Elaine Meng, Eric Pettersen

October 22-25, 2013

EMBL Masterclass. Sydney, Australia. 24 attendees. 2 sessions on Cytoscape, 40 hours prep time. 2 sessions on Chimera, 12 hours prep time. Plenary talk on networks and structures, 14 hours prep time.

• Scooter Morris

October 28, 2013

Cytoscape workshop sponsored by the Systems Biology Institute in Melbourne, AU. 14 attendees, 10 hours prep time.

• Scooter Morris

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Past reports 2013, 2012, 2011, 2010, 2009, 2008, 2007

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