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to Introduction Mass Spectrometry Syllabus for Chem 395/455, sections 1/2 Spring Semester 2009 Instructor: Dr. M. Paul Chiarelli, office FH 102 (email: mchiare@luc.edu, phone 508-3106) Office Hours Tuesday 9:30-11:30 AM and Wednesday 3:30 to 5:30 PM. Book: "Interpretation of Mass Spectra" by Fred W. McLafferty and Frantisek Turecek. Objectives: The specific objectives of this course are to acquaint the student with basic aspects of mass spectrometry. The focus of the course will be twofold. One part will concentrate on the interpretation of mass spectra, particularly the type of spectra generated by electron ionization (i.e, the spectra you might acquire from a typical GC/MS determination) and the mass spectra would acquire from large biological molecules, such as proteins and oligonucleotides. The other part of the course will be a general survey of the different types of mass spectrometers, ionization techniques, and their applications in real world research problems. The textbook will be used primarily to teach spectra interpretation, particularly electron ionization. The other part of the course will be a general survey of the different types of mass spectrometers, ionization techniques, and their applications in real world research problems. The material for the second half of the course will come from journal articles and other handouts that I will make available to you. Class Procedures: The class will meet on Mondays and Wednesdays from 5:30 PM to 6:50 PM. This is a 3 hr. credit course. There will be two exams and a final. There will two problem sets that will be collected and graded. The problem sets will be concerned with mass spectra interpretation primarily. You will be asked to write one 5-page paper on a particular application of mass spectrometry on a topic agreed upon by you and the instructor. The contribution of each exam/assignment to your final grade breaks down as follows: Item Problem Sets (2) In-class exams Paper Final exam % Total grade 10% 15% 25% 25% % total 20% 30% 25% 25% 100% 1 A tentative list of meeting dates and the lecture titles are given below. If there is a topic of particular interest you would like to cover and don't see it below, come and talk to me. I will try to work it in. Monday Jan 12 Discussion of Course Goals; Introductory Lecture What is Mass Spectrometry ? Appearance of a Mass Spectrum MLK day - No Class GC/MS and Quadrupole Mass Analyzers Molecule Ions; Calculating elemental compositions Electron Impact Ion Generation and Mechanisms of Ion Generation Alpha-cleavage and Charge-Site Initiated Fragmentation Radical Site (McLafferty) Rearrangement Reactions Low Mass Ion series Fragmentation of Cyclic Structures Interpretation of EI spectra continued Exam I Electrospray Ionization: Generation of Molecule Ions Protein and Peptide Analyses based on MS and Enzymatic digestions Wednesday Jan 14 Monday Wednesday Monday Wednesday Jan 19 Jan 21 Jan 26 Jan 28 Monday Feb 2 Wednesday Monday Wednesday Monday Wednesday Monday Feb 4 Feb 9 Feb 11 Feb 16 Feb 18 Feb 23 Wednesday Feb 25 Monday Mar 2-Friday Mar 6 Spring Break Monday Wednesday Monday Mar 9 Mar 11 Mar 16 Protein and Peptide Analyses based on Tandem MS Protein and Peptide Analyses based on Tandem MS Top-Down Sequencing of Proteins by MS 2 Wednesday Mar 18 Database searching strategies for Protein Identification using MS data Monday Mar 23 MS of Oligonucleotides and Complex Carbohydrates Exam II Wednesday Mar 25 Monday Mar 30 Target analyte analysis based on LC and tandem MS 1 6 8 Tandem quadrupole Mass Spectrometry Ion Trap Mass spectrometry Linear Ion Traps and Orbitraps Fourier Transform Mass Spectrometry Wednesday Apr Monday Apr Wednesday Apr Monday Apr 13 Wednesday Apr Monday Apr 15 Time-of-Flight Mass Spectrometry 20 Matrix-Assisted Laser Desorption Ionization 22 Miscellaneous Applications (Electron Capture, ICP-MS) 27 Final Exam Wednesday Apr Monday Apr 3

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