Bi 177: Principles of Modern Microscopy California Institute of Technology - Fall 2009 Prof. Scott E Fraser (SF) Lecturers: Grant Jensen (GJ), John Choi (JC), Russ Jacobs (RJ), and Willy Supatto (WS) TA: Judith Su, judy AT caltech.edu, x4499
Mailing list: bi177students AT caltech.edu
Hours Mon and Wed 1:00-2:30 pm Broad 100 Lecture Hall
Lecture schedule (updated 10/25/09) Sep 30Lecture 00: Introduction to Course (WS)
Syllabus Oct 05Lecture 01: Basic optics (SF)
Homework 1, Due 10/7/09 Oct 07Lecture 02: Design and layout of real microscopes (SF)
Homework 2, Due 10/12/09 (beginning of class) Oct 12Lecture 03: Wide Field Fluorescence Microscopy (JC, johnchoi AT caltech.edu)
Homework 3, Due 10/14/09 (beginning of class) Oct 14Lecture 04: Lasers (physics, types, functions) (JC)
Homework 4, Due 10/28/09 (beginning of class)
** Get paper choice approved by TA Oct 19Lecture 05: Widefield vs laser scanning microscopy: adding the 3rd dimension (SF)
Homework 5, Due 10/21/09 (beginning of class)
** Exchange drafts for peer review Oct 21Lecture 06: Enhancing intrinsic contrast (SF)
** Return peer review draft Oct 26Lecture 07: Contrast, resolution, and AVEC (SF) Oct 28Lecture 08: Volume imaging (JC) Nov 02Lecture 09: Multiphoton microscopy (2PEF, SHG, THG, CARS) (WS)
** Project 1 due at the beginning of class! Nov 04Lecture 10: Motion and Fast Imaging (WS) Nov 09Lecture 11: Multiple labeling and multispectral imaging (SF) Nov 11Lecture 12: Quantitative fluorescence microscopy (FLIM, FRET, FRAP, FCS) (WS) Nov 16Lecture 13: Digital images: formation, visualization, processing, and analysis (WS) Nov 18Lecture 14: Electron microscopy and tomography (GJ) Nov 23Lecture 15: MRI and MR microscopy (RJ) Nov 25Meet with TA to discuss and approve project 2 (JS) Nov 30Lecture 16: Emerging imaging techniques I (NSOM and OCT) (SF)
** Exchange drafts for peer review Dec 02Lecture 17: Emerging imaging techniques II: far-field fluorescence nanoscopy (STED, nonlinear SIM, STORM/PALM) (WS)
** Return peer review draft
** Project 2 Due Dec 6th (TA mailbox, first floor of BI). Will collect by 1pm Monday, Dec 7th.
Reading Projects Read and study a published paper in a mainstream journal. Write a short report concerning this paper. The report should be ~5 pages long. Get pre-approval of TA on paper/topic.
Coursework Reading 6 Simple problem sets Paper reading project (2 per term) No midterm or final exam
Grading Grades based on the Homework and the Projects. Homework, Project 1, Project 2 are given equal weight. Late homework assignments are not accepted. Score can be dropped with medical or Dean's excuse.
Auditors and non-traditional students Auditors are welcome to take the Course, but are required to do the homework problem sets and reading.
Links Bi177 & Bi227 website Microscope Primer Microscopy from the Very Beginning (Zeiss) Olympus Microscopy Primer