Archived PDFs and Videos of Training Workshops

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Speaker
Institution
Presentation Title

PPT/Other Materials

Video
Colin Palmer
CCP-EM
Lecture: Intro to workshop and CCP-EM
Kevin Cowtan
University of York
Lecture: Automated model building with Buccaneer & Nautilus
Kevin Cowtan
University of York
Tutorial: Buccaneer
 
Paul Emsley
MRC, LMB
Lecture: Cryo-EM model building with modern Coot
Paul Emsley
MRC, LMB
Tutorial: Coot (part 1)
 
Paul Emsley
MRC, LMB
Tutorial: Coot (part 2)
 
Maya Topf
ISMB, Birkbeck
Lecture: Flexible fitting of Atomic Models
Tristan Cragnolini
ISMB, Birkbeck
Tutorial: Flex-EM (part 1)
 
Aaron Sweeney
University College London
Tutorial: Flex-EM (part 2)
 
Andrea Thorn
University of Würzburg
Lecture: Finding secondary structure in cryo-EM maps: HARUSPEX
Rob Nicholls
MRC, LMB
Lecture: Refinement against cryo-EM maps
Rob Nicholls
MRC, LMB
Tutorial: Refmac (part 1)
 
Rob Nicholls
MRC, LMB
Tutorial: Refmac (part 2)
 
Ardan Patwardhan
EMBL-EBI
Lecture: PDB, EMDB, & Empiar: Public archiving of cryo-EM data
PPT
Arjen Jakobi
TU Delft
Lecture: Map sharpening tools for cryo-EM density maps
Arjen Jakobi
TU Delft
Tutorial: LocScale
 
Agnel Joseph
CCP-EM
Lecture: Validation of cryo-EM maps and models
PPT
Agnel Joseph
CCP-EM
Lecture: Model Validation
PPT
Agnel Joseph
CCP-EM
Tutorial: Model Validation
 
All Speakers
 
General Q&A Session
N/A
Video

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

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Speaker
Institution
Presentation Title
PPT/Other Materials
Video
David Veesler
Univ. of Washington
Structural Studies of the SARS-CoV Spike Glycoprotein
N/A
David Stuart
Oxford University & Diamond Light Source
The use of cryoEM structural information to advance SARS2-CoV-2 biology and therapy
Goran Kokic
Max Planck Institute, Göttingen
Structure of replicating SARS-COV-2 polymerase
Erica Ollmen Saphire, Adrian Enriquez, Kathryn Hasti
La Jolla Institute for Immunology
Antibodies against Emerging Viral Disease

N/A

Rhiju Das, Ivan Zheludev
Stanford University
CryoEM of previously unsolvable RNA structures including coronavirus genome elements
Stephan Wilkens
SUNY Upstate Medical University, Syracuse
Targeting Vacuolar H+-ATPase for Antiviral Therapy

 

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Speaker
Institution
Presentation Title
PPT/Other
Video
Mark Hezik
UC San Diego
Sample Preparation for cryo-EM
David DeRosier
Brandeis University
Image Contrast Theory and Reconstruction
Alexis Rohou
Genentech
Principles of Image Processing
Andres Leschziner
UC San Diego
Determining Structures of Challenging Samples
Dmitry Lyumkis
Salk Institute
Dealing with Resolution Anisotropy and Considerations for High Resolution Structure Determination
Wah Chiu
Stanford/SLAC
Atomic Modeling and the Importance of Validation
Ali Punjani
Structural Biotechnology
CryoSPARC Demonstration/Tutorial
See June Workshop
Speaker
Institution
Presentation Title
PPT/Other
Video
David DeRosier
Brandeis University
If Only...
Ali Punjabi
Structural Biotechnology
CryoSPARC (AM) 6/10/20 User Interface overview/Day 1 Cryo SPARC Instructions
Ali Punjabi

Structural

Biotechnology

CryoSPARC (PM) 6/10/20
Ali Punjabi
Structural Biotechnology
CryoSPARC (AM) 6/11/20
Ali Punjabi
Structural Biotechnology
CryoSPARC (PM) 6/11/20
Stephan Arulthasan
Structural Biotechnology
CryoSPARC Architecture & Management
Ali Punjabi
Structural Biotechnology
CryoSPARC (PM) 06/11/20
see above PPTs
     Part13/Part14/     Part15/Part16
Greg Pintilie
Stanford University
CryoEM Map resolution assessment, validation, visualization and segmentation
Cathy Lawson
Rutgers University
EMDataResource: Structure Data Archiving, Validation Challenges
Speaker
Institution
Presentation Title
PPT/Other
Video
Yifan Cheng
HHMI UC San Francisco
 
N/A
N/A
Christopher Booth
Ametek
Detection Technologies for Cryo-Electron Microscopy
Speaker
Institution
Presentation Title
PPT/Other
Video
Robert Glaeser
Lawrence Berkeley National Lab (LBNL)
Geneal Principles of Phase Contrast and Phase Plates
Robert Glaeser
Lawrence Berkeley National Lab (LBNL)
Single-Particle Grid Preparation
Speaker
Institution
Presentation Title
PPT/Other
Video
Tom Goddard, Elaine Meng, Eric Pettersen
UC San Francisco
ChimerX-Visualization of CryoEM Maps and Models
N/A
Greg Pintilie
Stanford University
Segmentation, Rigid Body and Flexible Fitting
N/A
Tom Goddard, Elaine Meng, Eric Pettersen
UC San Francisco
Refinement of cryoEM maps with Isolde
N/A
Tom Goddard
UC San Francisco
Publication-Quality Images and Movies
N/A
Paul Adams
Lawrence Berkeley National Lab (LBNL)
Phenix Introduction
Paul Adams
Lawrence Berkeley National Lab (LBNL)
Atomic Models from Cryo-EM Data
see above video
Pavel Afonine
Lawrence Berkeley National Lab (LBNL)
Structure Refinement
see above video
Paul Adams
Lawrence Berkeley National Lab (LBNL)
Model Validation for Cryo-EM
see above video
Pavel Afonine
Lawrence Berkeley National Lab (LBNL)
Structure Refinement and Validation Practical
see above video
Nigel Moriarty
Lawrence Berkeley National Lab (LBNL)
Ligands
see above video
Greg Pintilie
Stanford University
Assessment of High Resolution CryoEM Features
Helen Berman
 
Validation of Biological Structures
N/A
N/A
Cathy Lawson
Rutgers University
EM Structure Archives, Validation and Challenges
see above video
Speaker
Institution
Presentation Title
PPT/Other
Video
David DeRosier
Brandeis University
General principles of cryoEM 3D reconstructions
Jose Maria Carazo
CNB-CSIC
Basic image processing for EM Part 1&2
Carlos O Sanchez Sorzano
CNB-CSIC
Image Processing Principles
Yiorgio Skiniotis
Stanford University
Dealing with heterogeneity in single-particle data/examples
N/A
Greg Pintilie
Stanford University
Model building and map validation
N/A
N/A
Speaker
Institution
Presentation Title
PPT/Other
Video
Juergen Plitzko
Max Planck Institute
EM Basics
Video
Yiorgio Skiniotis
Stanford University
Freezing Basics
Video
Christopher Booth
Gatan
Camera
Video
Yee Ting Li
SLAC National Accelerator Lab
eLogbook and data transfer
N/A
N/A
Robert Glaeser
Lawrence Berkeley National Lab (LBNL)
Radiation Damage
Video
Zoltan Metlagel
FEI
EPU and Phase Plate
N/A
N/A
Corey Hecksel
Stanford University
Data Collection (Seriel EM)
Video
Speaker
Institution
Presentation Title
PPT/Other
Video
Todd Goddard, Elaine Meng, Eric Pettersen
UC San Francisco
ChimeraX - Visualization of cryoEM maps and models
Video
Greg Pintilie
Stanford University
Rigid Body and Flexible Fitting
Video
Paul Adams
Lawrence Berkeley National Lab (LBNL)
Phenix Introduction
Video
Paul Adams
Lawrence Berkeley National Lab (LBNL)
Automated Model Docking and Building
Video
Pavel Afonine
Lawrence Berkeley National Lab (LBNL)
Phenix Tools for CryoEM:  Refinement and Validation
Video
Paul Adams
Lawrence Berkeley National Lab (LBNL)
Model Validation for Cryo-EM
Video
Nigel Moriarty
Lawrence Berkeley National Lab (LBNL)
Restraints in Phenix
Video
Corey Hyrc
 
Accurate representation of cryoEM Structures
Video
Greg Pintilie
Stanford University
Assessment of High Resolution of CryoEM Features
Video
M Robertson
 
CryoEM Structure Ligand Modeling
N/A
Video
Cathy Lawson
Rutgers University
CryoEM Archives, Challenges and Validation
Video
Speaker
Institution
Presentation Title
PPT/Other
Video
David DeRosier
Brandeis University
General principles of cryoEM image reconstruction
Video
Yee Ting Li
SLAC National Accelerator Lab
Data acquisition and pre-processing software logging on and computer basics
Video
Cornelius Gati
SLAC National Accelerator Lab
Image processing with Relion - Introduction
N/A
N/A
Greg Pintilie, Wah Chiu
Stanford University
Map visualization and validation
Video
Cathy Lawson
Rutgers University
Cryo-EM Map Challenge, Map Deposition and Archiving
Video
Yiorgio Skiniotis
Stanford University
Dealing with heterogeneity in single-particle cryoEM data
Video
Cornelius Gati
SLAC National Accelerator Lab
Different image processing software packages
N/A
N/A
Speaker Institution Presentation Title PPT/Other Video
Yiorgio Skiniotis Stanford University Cryo-Specimen Preparation PPT N/A
Wah Chiu Stanford/SLAC Radiation Damage in CryoEM PPT N/A
Christopher Booth Gatan Detection Technologies for Cryo-Electron Microscopy PPT N/A
Juergen Plitzko Max Planck Institute TEM basics and column alignment PPT N/A
David Bushnell Stanford/SLAC Low dose imaging via Serial EM and EPU PPT N/A
Wah Chiu Stanford/SLAC Image contrast theory in CryoEM PPT N/A
John Spear Thermofisher Krios and Talos alignment PPT N/A
Yee Ting Li SLAC National Accelerator Lab eLogbook, data collection monitoring and pre-processing PPT N/A