= Training Events = == 2025 == March 14, 2025 - Demonstration of virtual reality visualization of [https://www.rbvi.ucsf.edu/chimerax/data/delta-opioid-jan2020/binding.html opioid receptor and opioid drugs] for 5 UCSF Biophysics program student applicants. Also showed Sony and Acer 3D flat-panel molecular visualization. 1 hour. Organized by Nicole Flowers. January 9, 14, 16, 21, 2025 - 8 hours teaching ChimeraX and machine learning structure prediction with !AlphaFold 3 to 15 Biophysics graduate students. Team projects involved [https://www.rbvi.ucsf.edu/chimerax/data/macromethods-jan2025/af3_drugs.html predicting 1500 FDA approved compounds bound to virus targets]. Course organized by John Gross. == 2024 == December 11, 2024 - Trained postdoc Andrii Kyrylchuk to use standalone Looksee VR and ChimeraX PC VR for examining ligand binding, for potential use in the UCSF [https://bkslab.org Brian Shoichet lab]. Looked at paxlovid drug resistance. 2 hours. October 23, 2024 - 100 minute hands-on tutorial for 40 students and researchers as part of the Purdue University Structural Biology and Biophysics Club (SBBC) [https://www.linkedin.com/posts/purdue-structural-biology-and-biophysics-club_dear-sbbc-members-we-are-excited-to-announce-activity-7254616623959982080-1D0X workshop series]. ChimeraX structure vis, cryoEM maps and alphafold models based on this [https://www.rbvi.ucsf.edu/chimerax/data/methods-jan2024/methods.html tutorial]. Many good questions. Organized by Nourin Ferdausi and Priyanka Naik. July 29, 2024 - Trained 8 UCSF [https://pharm.ucsf.edu/bays Bay Area Youth Science program] (BAYS) high school interns to use virtual reality Quest 3 headsets. Looked at opioid receptor and drugs. 1 hour. Organized by Sydney Williams, Jaela Caston, Luis Santiago. June 20, 2024 - Virtual reality training for [https://biosciences.lbl.gov/profiles/asmit-bhowmick/ Asmit Bhowmick from Lawrence Berkeley National Labs] to help setup VR at LBNL. Looked at photosystem II (PDB 7RF1) using both [https://www.rbvi.ucsf.edu/chimerax/data/looksee-mar2023/looksee.html LookSee standalone VR] and ChimeraX VR. 2 hours. June 12, 2024 - CryoEM virtual reality training for Eric Tse, head of the [https://southworthlab.ucsf.edu/cryo-em-resources UCSF Sandler cryoEM facility] and 5 colleagues from the [https://ind.ucsf.edu Institute for Neurodegenerative Disease] preparing their facility for helping users with VR. Showed both standalone Looksee VR and ChimeraX VR. 2 hours. June 5, 2024 - Tom Ferrin showed virtual reality visualization of opioid receptor and endorphins and paxlovid to group of about 20 IEEE retirees using [https://www.rbvi.ucsf.edu/chimerax/data/vr-plans-may2023/vr_plans.html LookSee standalone VR]. Held in Livermore. April 30, 2024 - Showed guests at the [https://specialevents.ucsf.edu/event/2024-byers-award-lecture-basic-science UCSF Byer's lecture] reception opioid receptors and ligands and electron microscopy with [https://www.rbvi.ucsf.edu/chimerax/data/looksee-mar2023/looksee.html LookSee virtual reality], 1 hour, about 20 visitors. Organized by Aashish Manglik. March 1, 2024 - Gave hands-on virtual reality molecular visualization session for 15 UCSF Pharmaceutical Sciences and Pharmacogenomics (PSPG) program students using Quest 3 headsets with pass-through video and hand tracking. February 21, 2024 - Gave 2 hour ChimeraX intro hands-on tutorial in-person at an [https://bioinformatics.niaid.nih.gov/biovizworkshop NIAID biovisualization workshop] in [https://faes.org Foundation for Advanced Education in the Scienes] classrooms to about 40 researchers and students. Presented [https://www.rbvi.ucsf.edu/chimerax/data/methods-jan2024/methods.html cryoEM and AlphaFold] and answered many basic ChimeraX use questions. Organized by Meghan !McCarthy and Darrell Hurt from NIAID. February 6, 2024 - [https://www.rbvi.ucsf.edu/chimerax/data/afbatch-jan2024/rim_dimers.html AlphaFold prospecting] how-to for [https://grosslab.ucsf.edu John Gross group] meeting at UCSF, about 20 people including members of Allison Williams, Hiten Madhani, Alan Frankel labs, and one other new faculty. 90 minutes, extensive discussion, many (20) questions. January 10, 2024 - [https://fraserlab.com/courses/methods_2023 Methods in Macromolecular Structure] class at UCSF, 2 hour ChimeraX [https://www.rbvi.ucsf.edu/chimerax/data/methods-jan2024/methods.html tutorial], ~20 students by Zoom, organized by Aashish Manglik and John Gross. == 2023 == November 9, 2023 - [https://phenix-online.org/phenixwebsite_static/mainsite/files/user_meeting/2023_11_kansas/07_Pearson_chimerax.pdf CryoEM workshop] at the University of Kansas, 1.5 hour training, 25 student and faculty participants organized by Phenix. May 19, 2023 - [https://cryoem-s2c2.slac.stanford.edu/training/s2c2-workshops CryoEM image processing workshop] at SLAC, 2 hour ChimeraX training, 50 students in person at Stanford and 50 online, organized by Wah Chiu. March 24, 2023 - Virtual reality demonstration for UCSF Biophysics student applicants, 7 students, 45 minutes, [https://www.rbvi.ucsf.edu/chimerax/data/paxlovid-vr-mar2023/paxlovid.html paxlovid drug resistance], in the !VizVault at UCSF Genentech Hall, organized by Nicole Flowers. March 20, 2023 - [https://wcsbw2023.mbi.ucla.edu/scientific-program-and-schedule/ West Coast Structural Biology workshop] poster session showing Quest virtual reality of paxlovid drug resistance, ribozyme, and thylakoid membrane electron microscopy, 2 hours of hands-on demonstration, with Quest Pro and Quest 2 headsets, first demo of pass-through video for augmented reality, presented with Mike Schmid (Stanford) at Asilomar. January 17, 2023 - [https://fraserlab.com/inquiry/ DRUG DESIGN: Personal Genome Interpretation in the post-AlphaFold world] UCSF course, 7 participants, 2 hour ChimeraX tutorial on the [https://www.rbvi.ucsf.edu/chimerax/data/delta-opioid-jan2020/binding.html delta opioid receptor], organized by Jaime Fraser January 11, 2023 - UCSF [https://fraserlab.com/courses/methods_2022/ Methods in Macromolecular Structure course], 24 participants, 2 hour ChimeraX tutorial on [https://www.rbvi.ucsf.edu/chimerax/data/stanford-apr2022/cryoem_intro.html cryoEM and atomic models], organized by Klim Verba, Aashish Manglik, John Gross, Jaime Fraser == 2022 == November 1-4, 2022 - CZI Imaging Institute workshop talk on [https://www.rbvi.ucsf.edu/chimerax/data/cryoet_oct2022/cryoet_vis.html visualization needs for electron tomography], 50 participants, Mountain View, organized by Dave Agard, Bridget Carragher and Clint Potter. May 2, 2022 -- Virtual reality show and tell for UCSF visitors attending [https://calendar.ucsf.edu/event/2022_byers_award_lecture_in_basic_science Byer's lecture "Getting the Message Across: How Cell Signaling Goes Awry in Human Disease"] by Natalia Jura. Let about 25 people use VR to look at HER2/HER3 receptor complexes, 90 minutes, UCSF Genentech Hall atrium. April 25, 2022 -- Stanford course "Biological cryogenic electron microscopy and tomography" BIOE 320 [https://www.rbvi.ucsf.edu/chimerax/data/stanford-apr2022/cryoem_intro.html ChimeraX tutorial looking at the mouse insulin receptor], 10 participants, 90 minutes, on-site at Stanford, hosted by Wah Chiu. March 29, 2022 -- [https://harvard.zoom.us/webinar/register/5216448640111/WN_mwTlN-cGSQWV_lB2YJGsLg SBGrid Spring Mini-Series - Cryo-electron microscopy of membrane proteins: from sample to structure] ChimeraX demonstration of [https://www.rbvi.ucsf.edu/chimerax/data/sbgrid-mar2022/alphafold_pae.html AlphaFold and predicted errors], 200 participants, 30 minutes, hosted by Jamaine Davis, Piotr Sliz, and Michelle Ottaviano. March 1, 2022 -- [https://cryoem.slac.stanford.edu/s2c2/sites/s2c2.cryoem.slac.stanford.edu/files/2022%20March%201-3%20Workshop%20Agenda%2002.24.22.pdf S2C2 High Resolution CryoET Image Processing Virtual Workshop] ChimeraX tutorial on [https://www.rbvi.ucsf.edu/chimerax/data/rml-sep2019/proteasomes.html tomogram visualization], 200 participants, 1.5 hours, hosted by Wah Chiu and Mike Schmid. February 17, 2022 -- [https://oir.nih.gov/sigs/virtual-augmented-reality-scientific-interest-group-varig NIH Virtual and Augmented Reality Scientific Interest Group] webinar [https://www.rbvi.ucsf.edu/chimerax/data/vr-nih-feb2022/ferritin.html VR demo using encapsulin ferritin cryoEM data], 50 participants, 1 hour, hosted by Jeremy Swan and Phil Cruz. January 5, 2022 - UCSF [https://fraserlab.com/courses/methods_2021/ Methods in Macromolecular Structure course], 20 participants, 2 hour ChimeraX tutorial on [https://www.rbvi.ucsf.edu/chimerax/data/nanobody-feb2021/nanobody.html sars-cov-2 nanobodies and cryoEM and X-ray maps], organized by Aashish Manglik. January 4, 2022 - Inquiry Immersion 2022 - [https://fraserlab.com/inquiry/ DRUG DESIGN: Why is it so hard to design new small molecule drugs?]. 12 participants, 2 hour ChimeraX [https://www.rbvi.ucsf.edu/chimerax/data/delta-opioid-jan2020/binding.html tutorial on delta-opioid receptor], organized by James Fraser, UCSF. == 2021 == November 9, 2021 - [https://sbgrid.org/news/sbgrid-university-otago-webinar-series SBGrid University of Otago Webinar Series], ChimeraX talk on [https://www.rbvi.ucsf.edu/chimerax/data/alphafold-nov2021/af_sbgrid.html AlphaFold and its Limitations], 170 participants, 20 minute talk + 10 minute Q & A. November 2, 2021 - [https://app.swapcard.com/event/2021-eoss-annual-meeting/ CZI Essential Open Source Software annual meeting], ChimeraX talk on [https://www.rbvi.ucsf.edu/chimerax/data/czi-nov2021/apple_m1.html porting to Apple M1 CPU], 25 participants, 10 minute talk + 15 minute Q & A. September 8, 2021 - [https://cryoem.slac.stanford.edu/s2c2/training/s²c²-workshops Stanford cryoEM workshop], 240 participants, 1 hour demo using [https://www.rbvi.ucsf.edu/chimerax/data/stanford-sep2021/alphafold.html AlphaFold for cryoEM modeling]. June 4, 2021 - UCSF summer interns, 14 interns, 2 hours, [https://isolde.cimr.cam.ac.uk/static/isolde/doc/tutorials/intro/cryo_intro/cryo_intro.html norovirus atomic model refinement in cryoEM using ISOLDE]. June 3, 2021 - UCSF summer interns, 14 undergraduates, 2 hours, [https://www.rbvi.ucsf.edu/chimerax/data/nanobody-feb2021/nanobody.html nanobodies and sars-cov-2 spikes]. March 25, 2021 - Royal Society of Chemistry [https://www.youtube.com/watch?v=M2K72Kgk718 webinar], ~100 participants, 2 hours, [https://www.rbvi.ucsf.edu/chimerax/data/nanobody-feb2021/nanobody.html sars-cov-2 spikes]. March 15, 2021 - [https://fraserlab.com/courses/methods_2020/ Macromolecular Methods Course], Jaime Fraser, John Gross, Aashish Manglik, ~20 students, 1 hours, [https://www.rbvi.ucsf.edu/chimerax/data/nanobody-feb2021/nanobody.html EM fitting], [https://www.rbvi.ucsf.edu/chimerax/data/nanobody-feb2021/chemshift.html NMR chemical shifts], and [https://www.rbvi.ucsf.edu/chimerax/data/nanobody-feb2021/nanobody_md.html molecular simulations]. February 17, 2021 - [https://fraserlab.com/courses/methods_2020/ Macromolecular Methods Course], Jaime Fraser, John Gross, Aashish Manglik, ~20 students, 1.5 hours, [https://www.rbvi.ucsf.edu/chimerax/data/nanobody-feb2021/nanobody.html nanobodies and X-ray maps]. January 7, 2021 - [https://fraserlab.com/inquiry/ Inquiry Immersion 2021: Drug Design] tutorial, ~20 participants, 1.5 hours, [https://www.cgl.ucsf.edu/chimerax/data/delta-opioid-jan2020/binding.html delta-opioid receptor tutorial]. == 2020 == July 7, 2020 - SBGrid [https://youtu.be/g80hxLO1SVk webinar], ~100 participants, 1 hour, [https://www.rbvi.ucsf.edu/chimerax/data/sbgrid-july2020/ Making Augmented Reality Videos with ChimeraX]. January 15, 2020 - [Stanford / SLAC cryoEM workshop], ~50 participants, 4 hours, [https://www.rbvi.ucsf.edu/chimerax/data/stanford-jul2019/tutorial.html ATP synthase ChimeraX basics], [https://isolde.cimr.cam.ac.uk/static/isolde/doc/tutorials/intro/cryo_intro/cryo_intro.html ISOLDE refinement], and [https://www.rbvi.ucsf.edu/chimerax/data/movies-may2019/moviemaking.html movie making]. January 8, 2020 - [https://fraserlab.com/inquiry/ Inquiry Immersion 2020: Drug Design] tutorial, ~20 participants, 1.5 hours, [https://www.cgl.ucsf.edu/chimerax/data/delta-opioid-jan2020/binding.html delta-opioid receptor tutorial].