The Winter-Spring 2019 EM Course

About the course

Electron microscopy in combination with image analysis is increasingly powerful in producing 3D structures of individual molecules and large macromolecular complexes that are unapproachable by other methods. This course is focused on the concepts and theories behind electron microscopy and will be taught in a reverse classroom format based on Grant Jensen’s online course (Getting Started in Cryo-EM from Caltech). Students will be responsible for watching these online lectures prior to class. Each week guest lecturers and SEMC staff lead discussions on the practice of solving molecular structures by electron microscopy.

The course will be held at the New York Structural Biology Center at 89 Convent Ave (133rd St).

To register for this course apply here:

Preliminary Course Schedule

Classes in A-11 seminar room (Mondays 3:30-5pm and select Wednesdays 3:30-5pm)

EM fundamentals section (month of January)

Jan 7 : Introduction & SEMC tour
Jan 9 : Basic anatomy of the electron microscope
Jan 14 : Challenges in biological EM & Sample Prep and practical
Jan 16 : Support films and practical
Jan 21 : No class – Martin Luther King Jr. Holiday
Jan 23 : Fourier transforms and Image Formation

Tomography section

Jan 28 : Tomography (part I: Intro and overview of ET)
Feb 4 : Tomography (part II: FIB-SEM)
Feb 11 : Tomography (part III: Cryo-Applications & Sub-tomogram averaging)
Feb 18 : No class – President’s Day

Single particle section

Feb 25 : Single-particle analysis (part I: Intro and overview of SPA)
Mar 4 : Single-particle analysis (part II: Sample preparation and data collection for SPA)
Mar 11 : Single-particle analysis (part III: Data Analysis and reconstruction workflow
Mar 18 : Single-particle analysis (part IV: Reconstruction workflow (cont), and Interpretation and Limitations)

EM crystallography section

Mar 25 : 2D crystallography (part I: Intro and overview of 2DX)
Apr 1 : 2D crystallography (part II: Helical)
Apr 3 : MicroED

EM challenges and new frontiers

Apr 8 : Validation methods
Apr 10 : EMDataBank: Structure Data Archiving, Validation Challenges
Apr 15 : Moderate Resolution Fitting
Apr 17 : Fitting Atomic Models
May 2 : Conclusion & open discussion (short class)

Lecture slides from the 2016 course may be found here, 2017 course may be found here and 2018 course may be found here. The lecture slides are provided for educational purposes only. All rights are reserved by their original authors. Please contact them if you would like to use or repost their content.


Practicals/Journal club in the SEMC conference room (starts @3:30pm)



For researchers taking the course for credit, the final score will be tabulated as follows:

Recitation 50%

Practical Worksheet 10% x 4

Attendance 10%

Suggested class structure (1.5 hr class)

30 min Introduction by guest lecturer on applying the class topic to scientific questions with focus on the nuts & bolts of the technique. Examples may be from their own research or recent papers.

15 min Coffee break/informal conversation

45 min Open ended discussion on the topic. Conversation starters may come from concept check questions on the topic or presentation on newer developments in the field.

2018-09-24T12:58:07+00:00August 28th, 2018|UpcomingEvent|