June 20–23, 2023
2022
Dates: June 14–17, 2022
Motivation
A key goal of LBMS is to organize, nurture and expand the cryo-EM community for Department of Energy (DOE)-funded researchers. This powerful and versatile technique will help to advance our understanding of the biological complexity of plant and microbial metabolism and their interfaces across scales spanning molecules to ecosystems, and to develop technologies to identify DOE mission-relevant metabolic capabilities and engineering possibilities in bacteria, fungi, archaea, viruses, plants and mixed communities.
This cryo-EM course is a major element in our DOE Outreach activities. The aim is to attract researchers from this community to take advantage of LBMS’ cryo-EM and help them in all phases including project initiation, sample preparation, data collection, and data processing and interpretation.
Course Topics
- Introduction to LBMS
- Introduction to electron microscopy and structural biology
- Introduction to electron microscope and image formation process
- Introduction to negative staining and cryo-electron microscopy
- Single-particle sample preparation tutorial and demonstration (negative staining and cryogenic vitrification)
- Single particle reconstruction: theory, application and available software
- MicroED: theory, application and available software
- Cryo-electron tomography
- EPU single particle data collection tutorial and demonstration
- Model building, refinement, and validation.
- Cryo-FIB sample preparation tutorial and demonstration
- SerialEM electron tomography data collection tutorial and demonstration
- Single-particle data analysis workflow tutorial and demonstration
- Tomographic data analysis workflow including subtomography average tutorial and demonstration.
Invited Speakers
- Muyuan Chen (Stanford)
- Oliver Clarke (Columbia)
- David DeRosier (Brandeis)
- Tamir Gonen (UCLA)
- Guobin Hu (BNL)
- Gabriel Lander (Scripps)
- Jianfeng Lin (Yale)
- Qun Liu (BNL)
- Jun Liu (Yale)
- Raphael Park (Yale)
- Digvijay Singh (UCSD)
- Dongyan Tan (SBU)
- Liguo Wang (BNL)
- Yong Xiong (Yale)
- Chen Xu (Umass)
Committee Information
- Liguo Wang: LBMS at Brookhaven National Laboratory
- Guobin Hu: LBMS at Brookhaven National Laboratory
- Jake Kaminsky: LBMS at Brookhaven National Laboratory
- Qun Liu: Biology department at Brookhaven National Laboratory
- Yong Xiong: Professor, Dept. of Molecular Biophysics and Biochemistry, Yale University
- Dongyan Tan: Assistant Professor, Pharmacological Sciences, Stony Brook University
- Jun Liu: Professor, Department of Microbial Pathogenesis, Yale University
- Sean McSweeney: NSLS-II at Brookhaven National Laboratory
Presentations
Introduction to electron microscopes and cameras
Video
Speaker: Chen Xu (Umass)
The evolution, deficiencies, and promise of cryo-electron microscopy
Video
Speaker: David DeRosier (Brandeis)
cryo-FIB to prepare cryo-FIB samples
Video
Speaker: Digvijay Singh (UCSD)
Single-particle data analysis workflow tutorial and demonstration
Video
Speaker: Dongyan Tan (SBU)
EM image formation and single particle reconstruction
Video
Speaker: Gabriel Lander (Scripps)
Cryo-ET sample preparation tutorial and demonstration
Video
Speaker: Jianfeng Lin (Yale)
Introduction to Cryo-electron tomography
Video
Speaker: Jun Liu (Yale)
Cryo-ET data collection and reconstruction tutorial and demonstration
Video
Speaker: Jun Liu (Yale)
Introduction to LBMS
Video
Speaker: Liguo Wang (BNL)
Introduction to negative staining and cryo-electron microscopy
Video
Speaker: Liguo Wang (BNL)
Subtomography averaging tutorial and demonstration in EMAN2
Video
Speaker: Muyuan Chen (Stanford)
Model building, refinement, and validation
Video
Speaker: Oliver Clarke (Columbia)
Tomographic data segmentation tutorial and demonstration
Video
Speaker: Raphael Park (Yale)
Course Venue
This workshop will be held as an interactive virtual event.
Event ID: E00004203
Note: This event falls under Exemption D (Formal classroom training held at Federal facilities, which does not exhibit indicia of a formal conference as outlined in the Conference/Event Exemption Request Form.) Participation is contingent on application acceptance.
Workshop website hosted and maintained by Brookhaven National Laboratory (BNL).
2021
Dates: June 15–18, 2021
Motivation
A key goal of LBMS is to organize, nurture and expand the cryo-EM community for Department of Energy (DOE)-funded researchers. This powerful and versatile technique will help to advance our understanding of the biological complexity of plant and microbial metabolism and their interfaces across scales spanning molecules to ecosystems, and to develop technologies to identify DOE mission-relevant metabolic capabilities and engineering possibilities in bacteria, fungi, archaea, viruses, plants and mixed communities.
This cryo-EM course is a major element in our DOE Outreach activities. The aim is to attract researchers from this community to take advantage of LBMS’ cryo-EM and help them in all phases including project initiation, sample preparation, data collection, and data processing and interpretation.
Course Topics
- Introduction to LBMS
- Introduction to electron microscopy and structural biology
- Introduction to electron microscope and image formation process
- Introduction to negative staining and cryo-electron microscopy
- Single-particle sample preparation tutorial and demonstration (negative staining and cryogenic vitrification)
- Single particle reconstruction: theory, application and available software
- MicroED: theory, application and available software
- Cryo-electron tomography
- EPU single particle data collection tutorial and demonstration
- Model building, refinement, and validation.
- Cryo-FIB sample preparation tutorial and demonstration
- SerialEM electron tomography data collection tutorial and demonstration
- Single-particle data analysis workflow tutorial and demonstration
- Tomographic data analysis workflow including subtomography average tutorial and demonstration.
Invited Speakers
- Muyuan Chen (BCM)
- Oliver Clarke (Columbia)
- Mark Ebrahim (Rockefeller)
- Tamir Gonen (UCLA)
- Jianfeng Lin (Yale)
- Raphael Park (Yale)
- Fred Sigworth (Yale)
Committee Information
- Liguo Wang: LBMS at Brookhaven National Laboratory
- Guobin Hu: LBMS at Brookhaven National Laboratory
- Qun Liu: Biology department at Brookhaven National Laboratory
- Yong Xiong: Professor, Dept. of Molecular Biophysics and Biochemistry, Yale University
- Dongyan Tan: Assistant Professor, Pharmacological Sciences, Stony Brook University
- Jun Liu: Associate Professor, Department of Microbial Pathogenesis, Yale University
- Sean McSweeney NSLS-II at Brookhaven National Laboratory
Video Recordings
- Introduction to LBMS
Speaker: Liguo Wang - Introduction to electron microscopy and structural biology
Speaker: Fred Sigworth - Introduction to electron microscope and image formation process
Speaker: Mark Ebrahim - Introduction to negative staining and cryo-electron microscopy
Speaker: Liguo Wang - Single-particle sample preparation tutorial and demonstration
(negative staining and cryogenic vitrification)
Speaker: Guobin Hu - Single particle reconstruction: theory, application and
available software
Speaker: Fred Sigworth - Model building, refinement, and validation
Speaker: Oliver Clarke - Single-particle data analysis workflow tutorial and
demonstration
Speaker: Dongyan Tan - EPU single particle data collection tutorial and demonstration
Speaker: Guobin Hu - Introduction to Cryo-electron tomography
Speaker: Jun Liu - Cryo-ET sample preparation tutorial and demonstration
Speaker: Jianfeng Lin - Cryo-ET data collection and reconstruction tutorial and
demonstration
Speaker: Jun Liu - Tomographic data segmentation tutorial and demonstration
Speaker: Raphael Park - Subtomography averaging tutorial and demonstration in EMAN2
Speaker: Muyan Chen - Discussion
Speaker: Qun Liu and Yong Xiong
Course Venue
This workshop will be held as an interactive virtual event.
Event ID: E000003645
Note: This event falls under Exemption D (Formal classroom training held at Federal facilities, which does not exhibit indicia of a formal conference as outlined in the Conference/Event Exemption Request Form.) Participation is contingent on application acceptance.
Workshop website hosted and maintained by Brookhaven National Laboratory (BNL).
