Difference between revisions of "CHEM-5181"

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*(Elemental, Advanced) [http://www3.interscience.wiley.com/cgi-bin/abstract/110464831/ABSTRACT Tutorial. Glow discharge mass spectrometry: Trace element determinations in solid samples.] King et al., <i>J. Mass. Spec.</i>, 30: 1061-1075 [http://www.colorado.edu/chemistry/chem5181/Restricted/GlowDischarge_King_JMS1995.PDF (pdf)]  
 
*(Elemental, Advanced) [http://www3.interscience.wiley.com/cgi-bin/abstract/110464831/ABSTRACT Tutorial. Glow discharge mass spectrometry: Trace element determinations in solid samples.] King et al., <i>J. Mass. Spec.</i>, 30: 1061-1075 [http://www.colorado.edu/chemistry/chem5181/Restricted/GlowDischarge_King_JMS1995.PDF (pdf)]  
 
*(Elemental, Advanced) [http://www3.interscience.wiley.com/cgi-bin/abstract/114201969/ABSTRACT Tutorial. Inductively coupled plasma mass spectrometry (ICP MS): a versatile tool.] A. Ammann, <i>J. Mass. Spec.</i>, 42: 419-427, 2007.
 
*(Elemental, Advanced) [http://www3.interscience.wiley.com/cgi-bin/abstract/114201969/ABSTRACT Tutorial. Inductively coupled plasma mass spectrometry (ICP MS): a versatile tool.] A. Ammann, <i>J. Mass. Spec.</i>, 42: 419-427, 2007.
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===Mass Analyzers===
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*(General, Suggested) [http://www.hopkinsmedicine.org/mams/MAMS/middleframe_files/teaching_files/ME330.884/2005/MS2005-Lecture-5-Instrumentation.pdf Instrumentation lecture from Prof. Cotter]
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*(General, Reference) [http://dx.doi.org/10.1021/a1960021u Mass Spectrometry (Review)] A.L. Burlingame, R. K. Boyd, and S. J. Gaskell, A. Chem,1998,68(12),647R-716R
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*(General, Advanced) [http://www.lcgceurope.com/lcgceurope/data/articlestandard/lcgceurope/112004/88264/article.pdf#search=%22mass%20accuracy%22 Debating Resolution and Mass Accuracy]. M. P. Balogh, <i>LC-GC Europe</i>, 17(3), 152–159 (2004)
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*(General, Reference) [http://pubs3.acs.org/acs/journals/doilookup?in_doi=10.1021/cr990087a Mass Analysis at the Advent of the 21st Century] S. A. McLuckey and J. M. Wells, <i>Chem. Rev.</i> 101(2), 571, 2001.
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*(Resolution, Advanced) [http://pubs.acs.org/cgi-bin/article.cgi/ancham-a/0000/74/i09/html/marshall.html Scaling MS Plateaus with High-Resolution FT-ICRMS]. A. G. Marshall, C. L. Henderickson, and S. D.-H. Shi <i>A. Chem</i>, 74(9), 252A (2002)
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*(TOF, Suggested) [http://www.chem.agilent.com/temp/radF998C/00045384.pdf Agilent's Tutorial on Time-of-Flight Mass Spectrometry]
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*(TOF, Advanced) [http://www3.interscience.wiley.com/cgi-bin/abstract/110464657/ABSTRACT Tutorial. Principles and instrumentation in time-of-flight mass spectrometry. Physical and instrumental concepts]. M. Guilhaus, <i>J. Mass. Spec.</i>, Volume 30: 1519-1532, 1995. [http://www.colorado.edu/chemistry/chem5181/Restricted/Guilhaus_ToFRev_JMS1995.PDF (pdf)]
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*(TOF, Advanced) [http://www3.interscience.wiley.com/cgi-bin/abstract/13069/ABSTRACT Perfect Timing: Time-of-flight Mass Spectrometry] M. Guilaus, RCMS, 1997, 951-962
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*(TOF, Advanced) [http://www3.interscience.wiley.com/cgi-bin/abstract/10009442/ABSTRACT  Time-of-Flight Mass Spectrometry: State of the Art in Chemical Analysis and Molecular Science] C. Weickhardt, F. Moritz, and J. Grotemeyer. MS Review. 1996, 139-162.
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*(TOF, Advanced)[http://jchemed.chem.wisc.edu/Journal/issues/1997/nov/abs1288.html Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry. Instrumentation and Applications] D. C. Muddiman, R. Bakhtiar, S. A. Hofstadler, and R. D. Smith <i>J. Chem. Ed.</i> 74, 1288, 1997.
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*(TOF, Advanced) [http://www3.interscience.wiley.com/cgi-bin/abstract/71004180/ABSTRACT Orthogonal acceleration time-of-flight mass spectrometry]. Guilhaus et al., <i>Mass Spec. Rev.</i>, 19: 65-107, 2000.
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*(TOF, Advanced) [http://link.aip.org/link/%3FRSINAK/26/1150/1 Time-of-Flight Mass Spectrometer with Improved Resolution] W. C. Wiley and I. H. McLaren, Rev. Sci. Instrum. 1955, 26(12), 1150-1157.
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*(TOF, Advanced) [http://www.ingentaconnect.com/content/els/13873806/2001/00000206/00000003/art00392 Time-of-flight mass spectrometry (concepts, achievements, and prospects)] B. A. Mamyrin, Int J Mass Spec, 2001, 251-266
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*(TOF, Advanced) Advanced Reading: [http://dx.doi.org/10.1016/S1044-0305(96)00256-5 On the initial velocity of ions generated by matrix-assisted laser desorption ionization and its effect on the calibration of delayed extraction time-of-flight mass spectra] P. Juhasz, M. L. Vestal, and S. A. Martin, <i>J. Am. Soc. Mass Spec</i> 8(3),209, 1997.
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*(TOF, Animation) [http://www.chem.agilent.com/Scripts/Generic.ASP?lPage=10184&indcol=N&prodcol=Y TOF-MS From Agilent]
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*(Quad, Required) [http://www.jce.divched.org/Journal/Issues/1998/Aug/abs1049.html Understanding the Quadrupole Mass Filter through Computer Simulation], Steel and Henchman, <i>J. Chem. Ed.</i> 75:1049-1054, 1998.
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*(Quad, Suggested) [http://jchemed.chem.wisc.edu/Journal/Issues/1996/Dec/abs1142.html Quadrupole Mass Spectrometers: An Intuitive Look at the Math]. Leary and Schmidt, <i>J. Chem. Ed.</i> 73: 1142-1144, 1996.
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*(Ion Trap, Animations) Courtesy of [http://www.thermofinnigan.com Thermo Finnigan]
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**[http://www.colorado.edu/chemistry/chem5181/IonTrapDemos/1_dampinggas.exe 1: Damping Gas]
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<li><a href="IonTrapDemos/2_trappingmsms.exe">2: Ion Trapping</a>
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<li><a href="IonTrapDemos/3_scanning_ms.exe">3: Scanning of the Mass Spectrum</a>
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<li><a href="IonTrapDemos/4_detection_ms.exe">4: Detection of the Mass Spectrum</a>
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<li><a href="IonTrapDemos/5_esilcq.exe">5: Entire Electrospray + Ion Trap Instrument (Finnigan ESI-LCQ)</a>
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<li><a href="IonTrapDemos/MSMS_1_elimination.exe">MS/MS 1: Ion Elimination</a> ("There Can Only Be One")
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<li><a href="IonTrapDemos/MSMS_2_capture.exe">MS/MS 2: Ion Capture</a>
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<li><a href="IonTrapDemos/MSMS_3_collision.exe">MS/MS 3: Collision-Induced Dissociation (CID) of the Trapped Ion</a>
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</ul>
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<li>(FTICR, Suggested) <a href="http://pubs.acs.org/cgi-bin/abstract.cgi/ancham/2001/73/i03/abs/ac000973h.html">Baseline mass resolution of peptide isobars: A record for molecular mass resolution</a>, He F, Hendrickson CL, Marshall AG, <i>Anal. Chem.</i> 73 (3): 647-650, 2001.
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<li>(FTICR, Suggested) <a href="http://www3.interscience.wiley.com/cgi-bin/abstract/24610/ABSTRACT">Fourier Transform Mass Spectrometry (Tutorial)</a> I. J. Amster, JMS, 1996, 1325-1337.
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<li>(FTICR, Advanced) <a href="http://www3.interscience.wiley.com/cgi-bin/abstract/10009487/ABSTRACT">Fourier transform ion cyclotron resonance mass spectrometry: A primer</a>. A.G. Marshall et al., <i>Mass Spec. Rev.</i> 17: 1-35, 1998.
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<li>(Orbitrap, Advanced) <a href="http://www3.interscience.wiley.com/cgi-bin/abstract/110471441/ABSTRACT">The Orbitrap: a new mass spectrometer (Perspective)</a>. R.G. Cooks et al., <i>J Mass Spec.</i> 40: 430-443, 2005.
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<li> (Q-TOF, Advanced) <a href = "http://www3.interscience.wiley.com/cgi-bin/abstract/85010411/ABSTRACT"> An introduction to quadrupole–time-of-flight mass spectrometry </a> I. V. Chernushevich, A. V. Loboda, and B. A. Thomson, JMS, 2001, 849-865
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<li>(MS/MS, Suggested) <a href="http://www.hopkinsmedicine.org/mams/MAMS/middleframe_files/teaching_files/ME330.884/2005/MS2005-Lecture-8-Tandems-and-Hybrids.pdf">Lecture on MS/MS from Prof. Bob Cotter</a>
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<li>(MCP, Advanced) <a href="http://www.burle.com/cgi-bin/byteserver.pl/pdf/tp214.pdf">Microchannel Plate Detectors</a> J. L. Wiza, Nuc Inst Meth, 1979, 587-601.
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<li>(Aerosol, Suggested)<a href="http://www3.interscience.wiley.com/cgi-bin/abstract/72001802/ABSTRACT?CRETRY=1&SRETRY=0">Tutorial: Sampling and analysis of individual particles by aerosol mass spectrometry. </a>, M.V. Johnston, <i>J. Mass Spectrom.</i> 35, 585–595 (2000).
 +
<li>(Aerosol, Suggested) Chemical and Microphysical Characterization of Ambient Aerosols with the Aerodyne Aerosol Mass Spectrometer. Canagaratna et al., <i>Mass Spectrometry Reviews</i>, in press, April 2006. <a href="Papers/MSReview_Final.pdf">PDF of accepted version</a> and <a href="Papers/MSReview_Figures.pdf">Figures</a>
 +
<li>(Aerosol, Advanced) <a href="http://www.aaar.org/ast_abst/v33n12pref.htm">Special Issue of AS&T on Aerosol Mass Spectrometry</a></li>
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<li>(Aerosol, Link to references) <a href="http://cires.colorado.edu/jimenez/ams-papers.html">Publications using the Aerodyne Aerosol Mass Spectrometer (AMS)</a>
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<li>(Aerosol, Link to references) <a href="http://cires.colorado.edu/jimenez/ams.html">Aerosol Mass Spectrometry Web Page</a>
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<li>(Aerosol, Link to references) <a href="http://mae.ucdavis.edu/wexler/spa_refs.html">A List of Publications in Single Particle Mass Spectrometry</a>, maintained by Prof. Tony Wexler.
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<li>(Aerosol, Link to references) <a href="http://www.udel.edu/chem/johnston/SPMSdbase.html">Another List of Publications in Single Particle Mass Spectrometry</a>, this one maintained by Prof. Murray Johnston.

Revision as of 14:29, 16 December 2010

This is the new home for the CU-Boulder Graduate Course CHEM-5181: Mass Spectrometry and Chromatography

  • The old web page is located here, and I'll be gradually move things over to this Wiki page, which is much easier to update.

Course Information

  • This course WILL be offered in Fall 2011, and WILL NOT be offered in Fall 2012
  • Fall 2010 Syllabus
  • Registering for the course:
    • Every CU student attending the course needs to register, either as (a) for grade; (b) for pass/fail; or (c) for "Audit/No Credit".
    • For non-CU students, you can register for the course through the CU Continuing Education Program ("ACCESS"), again as either (a) for grade; (b) for pass/fail; or (c) for "Audit/No Credit".
  • Lectures: Tue & Thu 11:00-12:15, Ekeley W166
  • Labs: to be determined, based on the student and MS facility schedules (typically three Tue afternoons 1-3 pm)
  • Office hours: immediately after class on Tue & Thu
  • Textbooks:
    • de Hoffmann & Stroobant. Mass Spectrometry, Principles and Applications, 3rd. Ed. ISBN: 0471485667; Library: QD96.M3 H6413 2007
    • McLafferty & Turecek Interpretation of Mass Spectra, 4th Ed., ISBN: 0935702253; Library: QC454.M22 1993;

FAQs about CHEM-5181

  • Can I audit the class?
    • Answer: Yes, but you need to register for it as "Audit / No Credit", either as a regular CU student or through the ACCESS Program. Auditors typically attend lectures but do not do the labs, homeworks, or exams, unless they want to.
  • But I don't want to register at all. Can I still audit the class?
    • Answer: No.
  • I work in industry and use MS and chromatography in my work, can I take the class?
    • Answer: Yes, registering through the ACCESS Program. Some things to think about: (a) you need to have the relevant background or be willing to work to gain the background, especially if you want to take the class for credit. (b) This is a class for 1st year graduate students in Anaytical & Environmental Chemistry, and it takes quite a bit of work to take the class for credit. If you don't have much time for the class due to your work responsibilities, you should register as "Audit / No Credit".

Lectures

Introduction, Review, Igor

Mass Spectrometers

  • 3D Ion Traps
    • Required Reading: de Hoffmann and Stroobant 2007, Section 2.2

Ionization Sources

MS Detectors, Data Acquisition, Vacuum

  • Vacuum Technology
    • Props: turbo pump, diaphragm pump

MS Interpretation

  • Interpretation of Mass Spectra III (The Molecular Ion)
    • Required Reading: McLafferty and Turecek 1993, Chapters 3 and 5
  • Interpretation of Mass Spectra IV (Fragmentation Mechanisms)
    • Required Reading: McLafferty and Turecek 1993, Chapters 4, and skim 9

Chromatography and Chemical Separations

  • Gas Chromatography
    • Prop: GC column
  • LC and HPLC
  • Ion Chromatography & Thin Layer Chromatography
  • Chromatographic Detectors

Homeworks

Reference material for homeworks

HW on Intro and Review of Fundamentals

HW on TOFMS

HW on Resolution & Accuracy

HW on Quadrupoles

HW on Ion Optics

Labs

Lab 1: MALDI-TOFMS

Lab 2: Electrospray MS

Lab 3: GC-MS of mixtures

Reference Materials

Suggestions Encouraged. Please send links to jose.jimenez at colorado.edu (All .pdf's are password restricted)

Introduction to Mass Spectrometry

Ionization Methods

Mass Analyzers

  • <a href="IonTrapDemos/2_trappingmsms.exe">2: Ion Trapping</a>
  • <a href="IonTrapDemos/3_scanning_ms.exe">3: Scanning of the Mass Spectrum</a>
  • <a href="IonTrapDemos/4_detection_ms.exe">4: Detection of the Mass Spectrum</a>
  • <a href="IonTrapDemos/5_esilcq.exe">5: Entire Electrospray + Ion Trap Instrument (Finnigan ESI-LCQ)</a>
  • <a href="IonTrapDemos/MSMS_1_elimination.exe">MS/MS 1: Ion Elimination</a> ("There Can Only Be One")
  • <a href="IonTrapDemos/MSMS_2_capture.exe">MS/MS 2: Ion Capture</a>
  • <a href="IonTrapDemos/MSMS_3_collision.exe">MS/MS 3: Collision-Induced Dissociation (CID) of the Trapped Ion</a> </ul>
  • (FTICR, Suggested) <a href="http://pubs.acs.org/cgi-bin/abstract.cgi/ancham/2001/73/i03/abs/ac000973h.html">Baseline mass resolution of peptide isobars: A record for molecular mass resolution</a>, He F, Hendrickson CL, Marshall AG, Anal. Chem. 73 (3): 647-650, 2001.
  • (FTICR, Suggested) <a href="http://www3.interscience.wiley.com/cgi-bin/abstract/24610/ABSTRACT">Fourier Transform Mass Spectrometry (Tutorial)</a> I. J. Amster, JMS, 1996, 1325-1337.
  • (FTICR, Advanced) <a href="http://www3.interscience.wiley.com/cgi-bin/abstract/10009487/ABSTRACT">Fourier transform ion cyclotron resonance mass spectrometry: A primer</a>. A.G. Marshall et al., Mass Spec. Rev. 17: 1-35, 1998.
  • (Orbitrap, Advanced) <a href="http://www3.interscience.wiley.com/cgi-bin/abstract/110471441/ABSTRACT">The Orbitrap: a new mass spectrometer (Perspective)</a>. R.G. Cooks et al., J Mass Spec. 40: 430-443, 2005.
  • (Q-TOF, Advanced) <a href = "http://www3.interscience.wiley.com/cgi-bin/abstract/85010411/ABSTRACT"> An introduction to quadrupole–time-of-flight mass spectrometry </a> I. V. Chernushevich, A. V. Loboda, and B. A. Thomson, JMS, 2001, 849-865
  • (MS/MS, Suggested) <a href="http://www.hopkinsmedicine.org/mams/MAMS/middleframe_files/teaching_files/ME330.884/2005/MS2005-Lecture-8-Tandems-and-Hybrids.pdf">Lecture on MS/MS from Prof. Bob Cotter</a>
  • (MCP, Advanced) <a href="http://www.burle.com/cgi-bin/byteserver.pl/pdf/tp214.pdf">Microchannel Plate Detectors</a> J. L. Wiza, Nuc Inst Meth, 1979, 587-601.
  • (Aerosol, Suggested)<a href="http://www3.interscience.wiley.com/cgi-bin/abstract/72001802/ABSTRACT?CRETRY=1&SRETRY=0">Tutorial: Sampling and analysis of individual particles by aerosol mass spectrometry. </a>, M.V. Johnston, J. Mass Spectrom. 35, 585–595 (2000).
  • (Aerosol, Suggested) Chemical and Microphysical Characterization of Ambient Aerosols with the Aerodyne Aerosol Mass Spectrometer. Canagaratna et al., Mass Spectrometry Reviews, in press, April 2006. <a href="Papers/MSReview_Final.pdf">PDF of accepted version</a> and <a href="Papers/MSReview_Figures.pdf">Figures</a>
  • (Aerosol, Advanced) <a href="http://www.aaar.org/ast_abst/v33n12pref.htm">Special Issue of AS&T on Aerosol Mass Spectrometry</a>
  • (Aerosol, Link to references) <a href="http://cires.colorado.edu/jimenez/ams-papers.html">Publications using the Aerodyne Aerosol Mass Spectrometer (AMS)</a>
  • (Aerosol, Link to references) <a href="http://cires.colorado.edu/jimenez/ams.html">Aerosol Mass Spectrometry Web Page</a>
  • (Aerosol, Link to references) <a href="http://mae.ucdavis.edu/wexler/spa_refs.html">A List of Publications in Single Particle Mass Spectrometry</a>, maintained by Prof. Tony Wexler.
  • (Aerosol, Link to references) <a href="http://www.udel.edu/chem/johnston/SPMSdbase.html">Another List of Publications in Single Particle Mass Spectrometry</a>, this one maintained by Prof. Murray Johnston.
    • Retrieved from "http://cires1.colorado.edu/jimenez-group/wiki/index.php?title=CHEM-5181&oldid=7759"