BME 250 Biospectroscopy (2016-2017)

BME 250 Biospectroscopy

(Not required for any major.)
Catalog Data:

BME 250 Biospectroscopy (Credit Units: 4) Principles of optical spectroscopy for biomedical engineering. Will focus on optical spectroscopy of biological relevant molecules, spectroscopy in cells and tissue. Spectroscopy techniques based on fluorescence. Graduate students only. (Design units: 0)

Required Textbook:
. Edition, , 1969, ISBN-13 978-3527328468.

Recommended Textbook:

Lecture material as provided on the class website.

Enrico Gratton
Relationship to Student Outcomes
No student outcomes specified.
Course Learning Outcomes. Students will:

1. This course will proved the student in Biomedical Engineering with the knowledge and understanding for planning and analyzing optical spectroscopy experiment in biomedical relevant materials including cells and tissues.

2. Understand the principle of optical transitions in biomolecules.

3. Understand the information that can be extracted from optical spectroscopy.

4. Plan experiment to solve specific questions about the identification of molecular species and molecular interactions based on Biospectroscopy.

5. Understand image analysis techniques applicable to cell population and tissues.

6. Use tools typically encountered in biomedical research, interpret data.

7. Document the problem identification, design and solution.

Prerequisites by Topic

Physics (Basic principles of electromagnetism), Chemistry (basic principles of molecular structure, molecular orbitals), Math (Correlation functions, Fourier transform), Computer Literacy (experience in solving mathematical problems on a computer).

Lecture Topics:
  • Principles of spectroscopy
  • Extinction coefficients. Einstein coefficients
  • Absorption. Molecular orbitals. Miltiphoton transitions
  • Fluorescence Jablonski diagram. Excitation-emission
  • Fluorescence anisotropy
  • Fluorescence decay
  • Anisotropy decay
  • Quenching
  • FRET
  • Excited state reactions. Solvent relaxations
  • Instruments: Steady state. Sources, optical setup, detectors
  • Instruments: lifetime
  • Microscopy: Wide field, LSM, TPE
  • Fluorescent probes, Quantum dots
  • Principles of fluctuation spectroscopy
  • Fluctuations. Chemical reactions
  • PCH. Single point and multidimensional
  • Dynamic imaging
  • ICS principles
  • Scanning FCS v RICS
  • FLIM
  • FRET imaging microscopy
  • TIRF microscopy o Optical resolution and super-resolution
  • CARS and SHG microscopy
Class Schedule:

Meets for 3 hours of lecture each week for 10 weeks.

Computer Usage:

Homework involves answering simple questions related to spectroscopy of biological materials

Laboratory Projects:


Professional Component
Design Content Description
Laboratory Portion:
Grading Criteria:
  • Homework: 60%
  • Final: 40%
  • Total: 100%
Estimated ABET Category Content:

Mathematics and Basic Science: 0.0 credit units

Computing: 0.0 credit units

Engineering Topics: 0.0 credit units

Engineering Science: 0.0 credit units

Engineering Design: 0.0 credit units

July 12, 2016
Senate Approved:
April 25, 2014
Approved Effective:
2014 Fall Qtr