PBT618 - MASS SPECTROMETRY of MACROMOLECULES

Course Name Code Semester Theory
(hours/week)		 Application
(hours/week)		 Credit ECTS
MASS SPECTROMETRY of MACROMOLECULES PBT618 2nd Semester 3 0 3 8
Prequisites
Course languageTurkish
Course typeElective 
Mode of DeliveryFace-to-Face 
Learning and teaching strategiesDiscussion
Demonstration
 
Instructor (s)Assoc. Prof. Dr. Ömür Çelikbıçak/ Prof. Dr. Bekir Salih  
Course objectiveMain objective of the course is to present some major concepts in the field of mass spectrometry and to demonstrate the vital importance and applications of mass spectrometry to determine chemical and physical properties of biomacromolecules (i.e., proteins, peptides and nucleotide chains) and synthetic polymers in today?s important interdisciplinary researches based on macromolecules. 
Learning outcomes
  1. Upon completion of the course, students will learn fundamental mass spectrometry information and mass spectrometric data evaluation methods, as well as necessary fundamental information for the identification and characterization of all kinds of macromolecules such as proteins, peptides, nucleic acid chains, large inorganic compounds and synthetic polymers using variety of mass spectrometry techniques in different interdisciplinary research areas.
Course ContentPrincipals of Mass Spectrometry. Ionization methods, mass analyzers and detectors. Gas phase ion molecule reactions, important thermochemical parameters and soft ionization methods can be used for analysis of macromolecules. Matrix?Assisted Laser Desorption/Ionization (MALDI) and Electrospray Ionization (ESI) Mass Spectrometry and their properties. Tandem Mass Spectrometry (MS/MS ve MSn) ve Multi?purpose hybride mass spectrometry techniques, MALDI and ESI mass spectrometry of synthetic polymersI (Molecular weight determination, molecular weight distribution, end group analysis ve PDI), Polymer mixtures and blends, copolymers and advanced polymer analysis using tandem mass spectrometry. Thermal analysis methods in mass spectrometry (Pyrolysis ve heated solid probe mass spectrometry). Mass spectrometry techniques used for detection of polymer?metal interactions (ICP?MS).  
References? Hoffman E.d. and Stroobant, V., 2007, Mass Spectrometry: Principles and Applications, John Wiley&Sons Ltd., West Sussex, 489p.
? Gross, J., 2004, Mass Spectrometry; A textbook, Springer?Verlag Berlin Heidelberg, 518p.
? Dass, C., 2007, Fundamentals of contemporary mass spectrometry, John Wiley & Sons, Inc., Hoboken, New Jersey, 585p.
? Westman?Brinkmalm, A., and Brinkmalm, G., 2009, A mass spectrometer?s building blocks. Mass spectrometry: instrumentation, interpretation, and applications. Ekman, R., Silberring, J., Westman?Brinkmalm, A., Kraj, A., (eds.), Jonh Wiley&Sons Publication, Inc., New Jersey, pp. 3?105.
? Hillenkamp, F. and Karas, M., 2007, The MALDI Process and Method. MALDI MS: A
Practical Guide to Instrumentation, Methods and Applications. Hillenkamp F., Peter?
Katalini?, J., (eds.), WILEY?VCH Verlag GmbH & Co. KGaA, Weinheim, pp. 1?28.
 

Course outline weekly

WeeksTopics
Week 1Principals of Mass Spectrometry
Week 2Ionization methods, mass analyzers and detectors.
Week 3Gas phase ion molecule reactions, important thermochemical parameters and soft ionization methods can be used for analysis of macromolecules.
Week 4Matrix?Assisted Laser Desorption/Ionization (MALDI) and Electrospray Ionization (ESI) Mass Spectrometry and their properties.
Week 5Tandem Mass Spectrometry (MS/MS ve MSn) ve Multi?purpose hybride mass spectrometry techniques
Week 6MALDI and ESI mass spectrometry of synthetic polymers?I (Molecular weight determination, molecular weight distribution, end group analysis ve PDI)
Week 7Mid?term exam
Week 8MALDI and ESI mass spectrometry of synthetic polymers?II (i.e., PS, PMMA, PVA, PIB etc.)
Week 9MALDI and ESI mass spectrometry of synthetic polymers?III (Polymer mixtures and blends, copolymers, Advanced polymer analysis using tandem mass spectrometry)
Week 10Thermal analysis methods in mass spectrometry (Pyrolysis ve heated solid probe mass spectrometry) and Mass spectrometry techniques used for detection of polymer?metal interactions (ICP?MS).
Week 11Protein/peptide chemistry and analysis (Protein sequencing, proteolytic enzymes, systematic cleavages of proteins and peptides) MALDI and ESI mass spectrometry of protein and peptide mixtures. Mass spectrometric databases and their usage for protein
Week 12Mass spectrometric analysis of nucleotide chains (i.e., DNA, RNA, oligonucleotides)
Week 13Chromatography and Mass Spectrometry (LC?MS and GC?MS). Separation and purification methods can be used for synthetic and biological macromolecules prior to their mass spectrometric analysis.
Week 14Analytical approach before macromolecular instrumental analysis and mass spectrometry
Week 15Homework
Week 16Final exam

Assesment methods

Course activitiesNumberPercentage
Attendance00
Laboratory00
Application00
Field activities00
Specific practical training00
Assignments220
Presentation00
Project00
Seminar00
Midterms130
Final exam150
Total100
Percentage of semester activities contributing grade succes050
Percentage of final exam contributing grade succes050
Total100

WORKLOAD AND ECTS CALCULATION

Activities Number Duration (hour) Total Work Load
Course Duration (x14) 14 3 42
Laboratory 0 0 0
Application000
Specific practical training000
Field activities000
Study Hours Out of Class (Preliminary work, reinforcement, ect)10660
Presentation / Seminar Preparation000
Project000
Homework assignment17070
Midterms (Study duration)13030
Final Exam (Study duration) 14040
Total Workload27149242

Matrix Of The Course Learning Outcomes Versus Program Outcomes

D.9. Key Learning OutcomesContrubition level*
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*1 Lowest, 2 Low, 3 Average, 4 High, 5 Highest