Difference between revisions of "AtmChem-5152"

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This is the web page for the Atmospheric Chemistry II Course at CU-Boulder (CHEM/ATOC-5152). It will be co-taught by Profs. Paul Ziemann and Jose-Luis Jimenez in Spring 2015 under the name CHEM-6111 (Special Topics in Analytical Chemistry), while the formal course will be created later.
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This is the web page for the Atmospheric Chemistry II Course at CU-Boulder (CHEM/ATOC-5152). It was first offered in Spring 2015. So far it has been taught by Profs. Paul Ziemann, Joost de Gouw, and Jose-Luis Jimenez.
  
 
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__TOC__
  
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== Organizational Info for Spring 2015 ==
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== Organizational Info for Spring 2017 ==
  
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* We will meet in Ekeley W165, Tue & Thu 9:30-10:45 am
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* The class meets Tue & Thu 9:30-10:45 am
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* [https://docs.google.com/document/d/1rWqZT3yNyzOHqJ41QXhY4MkLz10nyVlf4zsOJTVFc1o/pub Syllabus] & [https://docs.google.com/spreadsheets/d/1i5b3HAA2wM7XxJdOVVDG_DLPjdknWnfRHWf7cQspynU/pubhtml Course Schedule]
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* [https://docs.google.com/document/d/1jWlD5_B85l4HT-fGU7FfbGj3amDlkPLjIV1ENf83nY0/pub Syllabus] & [https://docs.google.com/spreadsheets/d/1i5b3HAA2wM7XxJdOVVDG_DLPjdknWnfRHWf7cQspynU/pubhtml?gid=353274601&single=true Course Schedule]
 
* Suggested textbooks: [http://acmg.seas.harvard.edu/publications/jacobbook/index.html Jacob], Finlayson-Pitts & Pitts, Seinfeld & Pandis
 
* Suggested textbooks: [http://acmg.seas.harvard.edu/publications/jacobbook/index.html Jacob], Finlayson-Pitts & Pitts, Seinfeld & Pandis
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* [http://tinyurl.com/hw-5152 Homeworks]
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* [https://www.wavemetrics.com/support/demos.htm Igor 7 installation] & [http://tinyurl.com/kinsim-help KinSim]
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* [https://piazza.com/class/i42at7qjf0r5zl?cid=14 Piazza system for Q&A]
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* [http://tinyurl.com/CHEM-5152-hw Homeworks] & [http://tinyurl.com/ac-cheat2 Atm. Chem. Cheat Sheet]
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* Office Hrs (both Paul & Jose): 30 min after each lecture (in the classroom) & Wed 11-12 in our offices (Cristol 434 / 436)
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* [https://piazza.com/colorado/spring2017/chem5152atoc5152/home Piazza system for Q&A]
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** For Jose an exception is Wed 25-Feb when I have a conflict, so office hours will instead be Fri 27-Feb 11-12.
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* Office Hrs: 15 min before and after each lecture (in the classroom or Jose's Office), or by appointment
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** During weeks when we not teaching we can still meet after class, or by appointment.
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** [http://tinyurl.com/j-class-sched Spreadsheet to find best times for office hours or additional meetings]
  
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== Topics for Spring 2015 (Ongoing and Already Covered) ==
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== Topics, Lecture Notes, and Readings ==
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Note: this list contains material from several course offerings and several professors. There could be some redundancy, and not all topics are covered at the same depth every year.
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=== Introductory Material ===
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* Reading:
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** [http://acmg.seas.harvard.edu/publications/jacobbook/bookchap1.pdf Chapter 1: Measures of Atmospheric Composition from Jacob]
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=== Box models & Kinetics, Radical Chemistry, Tropospheric O3 Formation ===
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* [http://cires.colorado.edu/jimenez/CHEM-5152/Lect/1_Intro_BoxMod_O3_OH.pdf Lecture Notes]
  
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* Box models, O3 formation in the troposphere, radical chemistry, intro to chamber experiments (Jose)
 
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** [http://cires.colorado.edu/jimenez/CHEM-5152/Intro_1.pdf Lecture Notes]
 
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** [https://royalsociety.org/policy/publications/2008/ground-level-ozone/ RSC Report on O3 formation] (some sections suggested)
 
 
* Reading (required unless marked otherwise):  
 
* Reading (required unless marked otherwise):  
 
**[http://acmg.seas.harvard.edu/publications/jacobbook/bookchap3.pdf Chapter 3: Simple Models from Jacob]
 
**[http://acmg.seas.harvard.edu/publications/jacobbook/bookchap3.pdf Chapter 3: Simple Models from Jacob]
 
**[http://acmg.seas.harvard.edu/publications/jacobbook/bookchap9.pdf Chapter 9: Chemical Kinetics from Jacob]
 
**[http://acmg.seas.harvard.edu/publications/jacobbook/bookchap9.pdf Chapter 9: Chemical Kinetics from Jacob]
 
**[http://acmg.seas.harvard.edu/publications/jacobbook/bookchap11.pdf Chapter 11: Oxidizing Power of the Troposphere from Jacob] (Read from start till end of section 11.3.2.)
 
**[http://acmg.seas.harvard.edu/publications/jacobbook/bookchap11.pdf Chapter 11: Oxidizing Power of the Troposphere from Jacob] (Read from start till end of section 11.3.2.)
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** Tool: [http://cires.colorado.edu/jimenez-group/software/KinSim/KinSim_v3.0.ipf KinSim v3.0 kinetics simulator] & [http://cires.colorado.edu/jimenez-group/software/KinSim/KinSim_v3.0_help.ifn KinSim help file]
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**[http://acmg.seas.harvard.edu/publications/jacobbook/bookchap11.pdf Chapter 12: Ozone Air Pollution from Jacob]
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** For your review, if needed:
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**[https://royalsociety.org/policy/publications/2008/ground-level-ozone/ RSC Report on O3 formation] (some sections suggested)
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*** [http://acmg.seas.harvard.edu/publications/jacobbook/bookchap1.pdf Chapter 1: Measures of Atmospheric Composition from Jacob]
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**[http://pubs.rsc.org/en/content/articlepdf/2012/cs/c2cs35181a Brown and Stutz Review on Nighttime Chemistry]
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** Other References (not required)
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*** [http://cires.colorado.edu/jimenez/AtmChem/2013/L5151_7_Trop_Oxidation.pdf Notes on trop. O3 formation from 5151]
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* Tool: [http://cires.colorado.edu/jimenez-group/software/KinSim/KinSim_v3.0.ipf KinSim v3.0 kinetics simulator] & [http://cires.colorado.edu/jimenez-group/software/KinSim/KinSim_v3.0_help.ifn KinSim help file]
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=== Photolysis ===
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* [http://cires.colorado.edu/jimenez/CHEM-5152/Lect/2_Photolysis.pdf Lecture Notes]
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* Reading:
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** [http://cires.colorado.edu/jimenez/CHEM-5152/Read/FP_Ch3_spec_photochem.pdf FP Chapter 3: Spectroscopy and Photochemistry]
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** [http://cires.colorado.edu/jimenez/CHEM-5152/Read/FP_Ch4_Photochem.pdf FP Chapter 4: Photochemistry of Important Atmos. Molec.]
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=== VOC oxidation & Secondary Organic Aerosol formation mechanisms ===
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* [http://cires.colorado.edu/jimenez/CHEM-5152/Lect/3_Organic.pdf Lecture Notes]
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* Reading:
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** [http://cires.colorado.edu/jimenez/CHEM-5152/Read/FP_Ch6_Organic_Chem.pdf FP Chapter 6 on Organic Atmospheric Chemistry]
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** [http://pubs.rsc.org/en/Content/ArticleLanding/2012/CS/c2cs35122f Atkinson & Ziemann SOA review]
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** [http://cires.colorado.edu/jimenez/AtmChem/Jacobson_Table_B.pdf Table of Relevant Chemical Structures] (From [http://www.amazon.com/Fundamentals-Atmospheric-Modeling-Professor-Jacobson/dp/0521548659 Jacobson])
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=== Aerosols, Condensation, Partitioning ===
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* [http://cires.colorado.edu/jimenez/CHEM-5152/Lect/4_Condensation_Part.pdf Lect. notes]
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* Aerosol loss mechanisms and inlets
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** [http://cires.colorado.edu/jimenez/CHEM-5152/Code/Aerocalc_Original.xls Aerosol Calculator] by Paul Baron
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** [http://pubs.acs.org/doi/full/10.1021/ac5042395 Knopf et al., 2015]: "Radial Diffusion and Penetration of Gas Molecules and Aerosol Particles through Laminar Flow Reactors, Denuders, and Sampling Tubes"
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* Reading
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** [http://acmg.seas.harvard.edu/publications/jacobbook/bookchap8.pdf Ch. 8: Aerosols] from Jacob
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** [http://cires1.colorado.edu/jimenez/AtmChem/SP_7.pdf S&P Chapter 7 on size distributions]
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* Reading on Organic Partitioning
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** [http://www.sciencedirect.com/science/article/pii/1352231094900930 Pankow 1994 on Absorptive Partitioning Theory]
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** [http://user.engineering.uiowa.edu/~cs_proj/publications/donahue_coupled_dilution_as_published.pdf Donahue 2006 on Volatility Basis Set for Partitioning]
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** [http://cires1.colorado.edu/jimenez/CHEM-5152/Read/DonahueAAARTutorial.2007.pdf Donahue 2007 AAAR Tutorial on VBS]
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** [http://www.atmos-chem-phys.net/8/2773/2008/acp-8-2773-2008.html Pankow & Asher 2008: SIMPOL structure-volatility relationships]
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=== Nucleation ===
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* [http://cires.colorado.edu/jimenez/CHEM-5152/Lect/Nucleation.pdf Lecture notes on nucleation] (guest lecture from Alessandro Franchin, NOAA)
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* Reading: [http://www.nature.com/nature/journal/v533/n7604/abs/nature18271.html Trostl et al., 2016]
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=== Chambers and Reactors ===
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* Large Environmental Chambers
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* [http://cires.colorado.edu/jimenez/CHEM-5152/Lect/Flow_Reactors.pdf Introduction to Flow Reactors]
  
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* VOC oxidation & Secondary Organic Aerosol formation mechanisms (Paul)
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* Reading:
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** Reading: [http://pubs.rsc.org/en/Content/ArticleLanding/2012/CS/c2cs35122f Atkinson & Ziemann SOA review]
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** [http://www.tandfonline.com/doi/abs/10.1080/02786826.2013.804621 Aimamant and Ziemann (2013)] on SOA formation from Pentadecane + OH
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** References for material discussed in class
 
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*** [http://cires.colorado.edu/jimenez/AtmChem/Jacobson_Table_B.pdf Table of Relevant Chemical Structures] (From [http://www.amazon.com/Fundamentals-Atmospheric-Modeling-Professor-Jacobson/dp/0521548659 Jacobson])
 
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*** [http://www.sciencedirect.com/science/article/pii/1352231094900930 Pankow 1994 on Absorptive Partitioning Theory]
 
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*** [http://user.engineering.uiowa.edu/~cs_proj/publications/donahue_coupled_dilution_as_published.pdf Donahue 2006 on Volatility Basis Set for Partitioning]
 
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*** [http://www.atmos-chem-phys.net/8/2773/2008/acp-8-2773-2008.html Pankow & Asher 2008: SIMPOL structure-volatility relationships]
 
  
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* Aerosol mechanics
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=== Key Instrumentation ===
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** [http://cires.colorado.edu/jimenez/CHEM-5152/Lect/Condensation_Part.pdf Size distributions, condensation / evaporation, gas/particle partitioning and VBS]
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* SMPS and CPC
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** Diffusion and in-particle reactions
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* [http://cires.colorado.edu/jimenez/CHEM-5152/Lect/Aerosol_MS.pdf Aerosol Mass Spectrometry]
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** Aerosol loss mechanisms and inlets
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** Reading: [http://cires.colorado.edu/jimenez/Papers/DeCarlo_HRToFAMS_complete_published.pdf HR-ToF-AMS paper]
  
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* Introduction to Chambers and Reactors
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* Thermal Desorption Particle Beam Mass Spectrometry
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** Large Environmental Chambers
 
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** [http://cires.colorado.edu/jimenez/CHEM-5152/Lect/Flow_Reactors.pdf Introduction to Flow Reactors]
 
  
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* Introduction to Aerosol Instrumentation
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* [http://cires.colorado.edu/jimenez/CHEM-5152/Lect/CIMS.pdf Chemical Ionization Mass Spectrometry (CIMS)] (Jose)
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** SMPS and CPC
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** Reading: [http://pubs.acs.org/doi/abs/10.1021/es500362a I- ToF-CIMS paper]
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** [http://cires.colorado.edu/jimenez/CHEM-5152/Lect/Aerosol_MS.pdf Aerosol Mass Spectrometry]
 
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*** Reading: [http://cires.colorado.edu/jimenez/Papers/DeCarlo_HRToFAMS_complete_published.pdf HR-ToF-AMS paper]
 
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** Thermal Desorption Particle Beam Mass Spectrometry
 
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** [http://cires.colorado.edu/jimenez/CHEM-5152/Lect/CIMS.pdf Chemical Ionization Mass Spectrometry (CIMS)] (Jose)
 
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*** Reading: [http://pubs.acs.org/doi/abs/10.1021/es500362a I- ToF-CIMS paper]
 
  
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== Possible Topics for Future Offerings ==
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=== Other possible topics ===
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* Positive Matrix Factorization (PMF) and use of the PET and/or ME-2 software tools
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* Introduction to analysis of actual data from instruments (e.g. AMS or CIMS with Igor packages)
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* Other topics of direct research-related interest to students and their advisors
  
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* CIMS
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== Award for Best Grade in the Course ==
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** Fundamentals and reaction mechanisms
 
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*** Predicting reaction rates
 
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** Properties of key CIMS systems: H3O+, acetate, I-, NO3-
 
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** PTRMS (Joost de Gouw)
 
  
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* Other possible topics
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* Spring 2017: Benjamin Demming (CHEM, Ziemann group)
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** Positive Matrix Factorization (PMF) and use of the PET and/or ME-2 software tools
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* Spring 2015: Demetrios Pagonis (CHEM, Ziemann group)
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** Introduction to analysis of actual data from instruments (e.g. AMS or CIMS with Igor packages)
 
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** Other topics of direct research-related interest to students and their advisors
 

Latest revision as of 11:40, 11 May 2017

This is the web page for the Atmospheric Chemistry II Course at CU-Boulder (CHEM/ATOC-5152). It was first offered in Spring 2015. So far it has been taught by Profs. Paul Ziemann, Joost de Gouw, and Jose-Luis Jimenez.

Organizational Info for Spring 2017

Topics, Lecture Notes, and Readings

Note: this list contains material from several course offerings and several professors. There could be some redundancy, and not all topics are covered at the same depth every year.

Introductory Material

Box models & Kinetics, Radical Chemistry, Tropospheric O3 Formation

Photolysis

VOC oxidation & Secondary Organic Aerosol formation mechanisms

Aerosols, Condensation, Partitioning

  • Aerosol loss mechanisms and inlets
    • Aerosol Calculator by Paul Baron
    • Knopf et al., 2015: "Radial Diffusion and Penetration of Gas Molecules and Aerosol Particles through Laminar Flow Reactors, Denuders, and Sampling Tubes"

Nucleation

Chambers and Reactors

Key Instrumentation

  • Thermal Desorption Particle Beam Mass Spectrometry

Other possible topics

  • Positive Matrix Factorization (PMF) and use of the PET and/or ME-2 software tools
  • Introduction to analysis of actual data from instruments (e.g. AMS or CIMS with Igor packages)
  • Other topics of direct research-related interest to students and their advisors

Award for Best Grade in the Course

  • Spring 2017: Benjamin Demming (CHEM, Ziemann group)
  • Spring 2015: Demetrios Pagonis (CHEM, Ziemann group)
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