Webinars
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SBGrid webinars are hosted with partial support from the NIH R25 Continuing Education for Structural Biology Mentors #GM151273, in collaboration with Co-PI Jamaine Davis of Meharry Medical College.
Topic: OccuPy: A software tool for heterogeneity - and occupancy analysis of cryo-EM reconstructions based on spatial filtering.
Presenter: Björn Forsberg, Ph.D, Postdoctoral Fellow, Karolinska Institutet
Host: Pete Meyer
Recorded on February 13, 2023
For more information on OccuPy:
https://sbgrid.org/software/titles/occupy
https://occupy.readthedocs.io/en/latest
https://github.com/bforsbe/OccuPy
Topic: PARTICLE: an Integrated Computing Platform for Single-Particle Electron Microscopy
Presenter: James Chen, Ph.D., Research Scientist, Dept of Biology, MIT
Host: Piotr Sliz
Recorded on October 4, 2012
Topic: RELION - Exploiting prior knowledge about biological macromolecules in cryo-EM structure determination
Presenter: Dari Kimanius, Ph.D., MRC Laboratory of Molecular Biology
Host: Shaun Rawson
Recorded on June 2, 2020
Topic: RELION
Presenter: Sjors Scheres, Group Leader
Medical Research Council, The Laboratory of Molecular Biology
Host: Jason Key
Recorded on March 24, 2015
Topic : RELION-3: new tools for automated high-resolution cryo-EM structure determination
Presenter: Sjors Scheres, Group Leader, MRC Laboratory of Molecular Biology, UK
Host: Jason Key / Shaun Rawson
Recorded: November 6, 2018
Topic: New developments in RELION-4.0
Presenter: Prof. Sjors Scheres, MRC Laboratory of Molecular Biology
Host: Jason Key
Recorded on December 7, 2021
SBGrid webinars are hosted with partial support from the NIH R25 Continuing Education for Structural Biology Mentors #GM151273, in collaboration with Co-PI Jamaine Davis of Meharry Medical College.
Topic: RELION-5.0: Recent developments
Presenter: Prof. Sjors Scheres, MRC Laboratory of Molecular Biology
Host: Shaun Rawson
Recorded on March 12, 2024
For more information on RELION:
https://sbgrid.org/software/titles/relion
https://www2.mrc-lmb.cam.ac.uk/group-leaders/n-to-s/sjors-scheres/
Topic: Quo Vaids Scipion
Presenter: Pablo Conesa, Senior Software Developer, National Center for Biotechnology
Host: Shaun Rawson
Recorded on April 21, 2020
Topic: Using Scipion for Stream Image Processing at Cryo-EM Facilities
Presenter: José Miguel de la Rosa Trevin, PhD, Scientific Software Engineer, SciLifeLab, Stockholm University, Sweden
Host: Jason Key
Recorded on June 12, 2018
Topic: Scipion 3.0
Presenter: Jose Miguel de la Rosa Trevin, Ph.D., Research Engineer, Science for Life Laboratory, Stockholm University
Host: Jason Key
Recorded on October 20, 2020
Topic: ScipionTomo: Towards cryo-electron tomography software integration, reproducibility, and validation.
Presenter: Pablo Conesa Team Leader, Spanish National Research Council
Host: Jason Key
Recorded on October 10, 2023
For more information on Scipion:
https://sbgrid.org/software/titles/scipion
https://github.com/pconesa
Topic: Protein Structure Determination with Single Particle Electron Microscopy - Computational Challenges
Presenter: Pawel Penczek, Ph.D., Professor and Director, Structural Biology Imaging Center, University of Texas Health Science Center at Houston
Host: Jason Key
Recorded on Jan 20, 2015
Topic: Integrative Structural Biology with SITUS
Presenter: Prof. Willy Wriggers, Old Dominion University
Host: Jason Key
Recorded on March 2, 2021
Willy Wriggers
Professor, Mechanical & Aerospace Engineering, Old Dominion University
Dr. Wriggers earned a Ph.D. in Physics from the University of Illinois, Urbana-Champaign in 1998. He held postdoctoral positions in Electron Microscopy (Scripps Research Institute) as well as Theoretical Chemistry (University of California, San Diego). In 1999 he was appointed Assistant Professor at The Scripps Research Institute. In 2003 he moved to the University of Texas Health Science Center, Houston, where he earned tenure as Associate Professor of Biomedical Informatics and Molecular Medicine. In 2007 he joined the private D. E. Shaw Research laboratory in New York City. In 2014 he returned to an academic position as Frank Batten Chair of Mechanical and Aerospace Engineering at ODU.
Situs Resources for SBGrid users:
Main web site for SBGrid version: http://situs.biomachina.org
Tutorials: http://situs.biomachina.org/ftut.html
Individual tool manuals: http://situs.biomachina.org/fguide.html
Publications: http://situs.biomachina.org/fref.html
Other Situs variants that may not be available in SBGrid: http://situs.biomachina.org/fflavors.html
Topic: Combining Structures from Different Biophysical Origins with Situs
Presenter: Willy Wriggers, Director, biomachina.org, Professor, Mechanical & Aerospace Engineering, Old Dominion University
Host: Jason Key
Recorded on October 4, 2016
Topic: SPHIRE: User-friendly pipeline for near-atomic resolution Cryo-EM structure determination with automatic validation mechanisms.
Speaker: Toshio Moriya, Ph.D. Postdoctoral Fellow, Max Planck Institute of Molecular Physiology
Host: Jason Key
Recorded on: October 10, 2017
Topic: TomoAlign: Consideration of sample motion in cryoET
Presenter: José-Jesús Fernéndez, Spanish National Centre for Biotechnology, Group Leader
Host: Jason Key
Recorded on: April 2, 2019
Topic: TomoTwin-cryoet
Presenter: Thorsten Wagner, Ph.D., Project Group Leader - Computational Structural Biology, Max-Planck-Institute of Molecular Physiology
Host: Jason Key
Recorded on November 8, 2022
Topic: TranSPHIRE
Presenter: Markus Stabrin, Max Planck Institute of Molecular Physiology
TranSPHIRE
Host: Shaun Rawson
Recorded on Tuesday, October 27th
Topic: Analyzing Molecular Assemblies with UCSF Chimera"
Presenter: Tom Goddard, Programmer/Analyst, Resource for Biocomputing, Visualization, and Informatics, UCSF
Host: Jason Key
Recordeed on February 7, 2013
SBGrid webinars are hosted with partial support from the NIH R25 Continuing Education for Structural Biology Mentors #GM151273, in collaboration with Co-PI Jamaine Davis of Meharry Medical College.
Topic: A Hitchhiker’s Guide to Structural Cryo-ET in Warp 2.0 & Friends
Presenter: Alister Burt, Ph.D., Computational Scientist, Genentech
Host: Shaun Rawson
Recorded on April 8, 2025
For more information on warp:
https://sbgrid.org/software/titles/warp