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Modern Mass Spectrometry Course Description (Chemistry 666, Fall 2006)
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ISSA Home » Science Departments » Dept. of Chemistry & Chemical Biology » Center for Mass Spectrometry » Course Description

Center for Mass Spectrometry

Modern Mass Spectrometry Chemistry 666 Fall 2006

Professor Athula Attygalle

Thursday Evenings (6:15 to 9:15 PM)
Room: McLean 106
First day of class: August 31, 2006
Registration: http://gradschool.stevens-tech.edu/registration/index.html
http://www.stevens.edu/registrar/

Mass spectrometry is one of the leading techniques for detection and analysis of extremely complex and fragile biological molecules. Thus, a thorough awareness of modern mass spectroscopic techniques is an absolute prerequisite for bioanalytical chemists engaged in biomedical, pharmaceutical, flavors and fragrance, cosmetic, and environmental research.

Course Description

A comprehensive hands-on course covering both fundamentals and modern aspects of mass spectrometry with emphasis on biological and biochemical applications.  Topics include: contemporary methods of gas phase ion formation [electron ionization (EI), chemical ionization (CI), inductively coupled plasma (ICP), fast atom bombardment (FAB), plasma desorption (PD), electrospray (ESI), sonic spray ionization(SSI), photo ionization (APPI), atmospheric pressure chemical ionization (APCI), matrix assisted laser desorption ionization (MALDI), surface enhanced laser desorption ionization (SELDI), ion detection (electron and photomultipliers, array detectors), and mass analysis [magnetic deflection, quadrupole, ion trap, time of flight (TOF), Fourier-transform (FTMS)].  Detailed interpretation of organic mass spectra for structural information with special emphasis on even-electron-ion fragmentation. Qualitative and quantitative applications in environmental, biological, pharmacological, forensic, geochemical sciences. 

Prerequisites: Undergraduate organic and physical chemistry.

Lecture and Practical Schedule
Aug 31st Course Introduction; Review of spectroscopic techniques; basic concepts of MS; Detectors, Analyzers (magnetic, quadrupole, ion trap, TOF, FTMS), ionization Techniques (EI, CI, DCI, FD, ICP, FAB)
Sept 7th Ionization Techniques (ESI, turbospray, nanospray, sonic-spray, photo-ionization, APCI, MALDI, SELDI)
Sept 14th Data Acquisition, Elemental composition, accurate mass (lockspray), isotopes, molecular ion, molecular formulas, degree of unsaturation, "Rule of 13" 
Sept 21st Basic fragmentation mechanisms, electron-ionization (EI) spectra, Interpretation of EI  spectra: Hydrocarbons, alcohols and phenols, ethers, aldehydes, ketones, acids, esters,  amines and amides. 
Sep 28th Continuation EI spectra 
Oct 5th Multiply charged ions, mol wt. of proteins, CAD, MS/MS, linked scans 
Oct 12th Preliminary Exam 1
Oct 19th Fragmentation of even-electron positive and negative ions 
Oct 26th  Amino acids and other small molecules, peptide sequencing, proteins
Nov 2nd Carbohydrates, nucleosides, oligonucleotides, lipids
Nov 9th  GC-MS, derivatization, artifacts, computer identification of spectra (PBM), use of Wiley Library
Nov 16th  Guest Lecture ?
Nov 23rd  Thanksgiving Recess, no class
Nov 30th  LC-MS, quantification Application of Mass Spectrometry (Environmental, Biological, Pharmacological, Forensic, Geochemical Applications), IRMS
Dec 7th Review session.  "Why Mass Spectrometry is so difficult to understand" (each student will be given an article from literature to review; 25 bonus points). 
Dec 14th Final Exam
Books
Mass Spectrometry
A Textbook
Gross, Jürgen H. 2004, XVIII, 518 p. 357 illus., Hardcover
ISBN: 3-540-40739-1
INTERPRETATION OFMASS SPECTRA4TH EDITION
Fred W. McLafferty
Cornell University

Frantisek Turecek
University of Washington
Practical Schedule
Five Saturday sessions will be held between 9 AM-12 noon.  Dates will be announced later.
Chemistry 666 | Fall 2006
     
Grading Scheme (Total 500 pts)
(All quizzes will be take-home. They will be handed out before the class and due on the following week)
Quiz #1      (Sept 7; due Sept 14)                                     30 pts
Quiz #2 (Sept 21; due Sept 28) 30 pts
Quiz #3 (Oct 12; due Oct 19) 30 pts
Quiz #4    (Oct 26; due Nov 2) 30 pts
Quiz #5     (Nov 9; due Nov 16) 30 pts
Prelim #1 (Oct 12, Thursday 6.30 - 9.00 PM)              150 pts
Review session #1 (Dec 8, Thursday 6.15 - 9.00 PM)            (25 bonus points)
 
Final Exam Dec 14, 6.15-9.00 PM open book 200 pts
 
  Total 500 pts

 
   

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