Single Particle Short Course
March 11-15, 2024
NCCAT will offer a 1 week workshop focused on the theory and practice of single-particle analysis. The mornings are filled with lectures and stimulating round table discussions. The afternoons provide hands-on practicals to reinforce fundamental concepts and topics covered earlier in the day.
Short-course Agenda
Monday, March 11, 2024 |
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| Session | Type | Lecturer | Topic |
| Morning | Lecture 1 – Keynote | Joachim Frank (Columbia University) | Intro and overview of SPA [pdf] |
| Morning | Roundtable 1 | students | Flashtalks from students |
| Afternoon | Lecture 2 | Abayomi Emmanuel Adegboyega & Tansi Zhang (Purdue University) | cryoVR for sample preparation [pdf] |
| Afternoon | Practical 1 | SEMC staff | cryoEM sample prep and grid prep stations [schedule] |
Tuesday, March 12, 2024 |
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| Session | Type | Lecturer | Topic |
| Morning | Lecture 3 | SEMC staff | Microscopes and tools of the trade [pdf] |
| Afternoon | Roundtable 2 | SEMC staff | Making use of local facilities and national centers |
| Afternoon | Practical 2 | SEMC staff | Plunge freezing & TEM stations [schedule] |
Wednesday, March 13, 2024 |
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| Session | Type | Lecturer | Topic |
| Morning | Lecture 4a | Fred Sigworth (Yale University) | Algorithms and foundational math PartI: derivation/explanation of the CTF, FTs [part-a pdf][part-b pdf] |
| Morning | Lecture 4b | Fred Sigworth (Yale University) | Algorithms and foundational math PartII: reconstruction, classification, maximum likelihood [pdf] |
| Morning | Lecture 5 | Reza Khayat (CUNY) & Amedee des Georges (NYU) | Data Analysis and reconstruction workflow [pdf] |
| Lunch | Roundtable 3 | Fred Sigworth & Amedee des Georges | Current and new algorithms to deal with SPA reconstruction |
| Afternoon | Practical 3 | SEMC staff | Processing using cryoSPARC [tutorial] |
Thursday, March 14, 2024 |
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| Session | Type | Lecturer | Topic |
| Morning | Lecture 6 | Rich Hite (Memorial Sloan Kettering Cancer Center) | Interpretation and Limitations of SPA [pdf] |
| Morning | Lecture 7 | Sonya Hanson (Flatiron Institute) |
ML methods for heterogeneity in SPA [pdf] |
| Lunch | Roundtable 4 | Rich Hite & Sonya Hanson | EM challenges and new frontiers |
| Afternoon | Practical 4 | SEMC staff | Autoloader TEMs and Krios data collection at a national center |
| Afternoon | Lecture 8 | Jack Turner (EMBD/EMPIAR) | EMDB & EMPIAR: Archiving of Electron Microscopy Data [pdf] |
| Dinner | all instructors | Group dinner | |
Friday, March 15, 2024 |
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| Session | Type | Lecturer | Topic |
| Morning | Lecture 9 | Oli Clarke (Columbia University) | Fitting Atomic Models [pdf] |
| Morning | Lecture 10 | Gira Bhabha & Damian Ekiert (John’s Hopkins University) | Coordinate Refinement and Validation [pdf] |
| Morning | Roundtable 5 | Gira Bhabha and Damian Ekiert | Making biological conclusions from cryoEM reconstructions. |
| Afternoon | Practical 5 | Christina Zimanyi (NYSBC/NCCAT) | Coot and model building |
Yes. This will be an in-person on-site workshop.
A copy of the NYSBC’s COVID-19 policies may be found here.
Yes. Parts of the workshop will be recorded. We will post all learning materials on our website.