Unit 1

Concept Check Questions for all Parts [PDF]

Part 1: Currents, coils, knobs and names: Basic anatomy of the electron microscope
8 modules, ~2 hours total, Slides [PDF]

• Electron guns
• EM lenses
• The column, knobs and names
• The sample chamber
• Energy filters
• Detectors
• Vacuum systems
• Summary, safety

Part 2: Fourier transforms and reciprocal space for beginners
6 modules, ~2 hours total, Slides [PDF]

• One dimensional waves and sums
• One-dimensional reciprocal space
• Two-dimensional waves and images
• Two-dimensional transforms and filters
• Three-dimensional waves and transforms
• Convolution and cross-correlation

Part 3: Image formation
6 modules, ~3 hours total, Slides [PDF]

• Amplitude and phase contrast, scattering
• Wave propagation and phase shifts
• The contrast transfer function
• Defocus and its effects
• Envelopes
• CTF correction

Part 4: Fundamental challenges in biological EM
5 modules, ~1 hour total, Slides [PDF]

• Sample prep: Room temperature methods
• Sample prep: Freezing methods
• Sample prep: Grids
• 3-D reconstruction
• Dose limitations

Part 5: Tomography
5 modules, ~2 hours total, Slides [PDF]

• Introduction to tomography
• Data collection and reconstruction
• Identifying objects of interest
• Limitations

Part 6: Single-particle analysis
6 modules, ~3 hours total, Slides [PDF]

• Introduction to single particle analysis
• Special sample prep issues
• Data collection (imaging)
• Reconstruction basics
• Reconstruction: additional topics
• Interpretation and limitations

Part 7: 2-D crystallography
4 modules, ~1 hour total, Slides [PDF]

• Introduction to 2-D crystallography and special sample prep issues
• The Fourier transform of a 2-D crystal
• Data collection and reconstruction
• Helical tubes