FAQ ANYL 1styr

• Frequently Asked Questions (FAQs) for Beginning Analytical, Environmental, and Atmospheric Division Graduate Students. A shortcut to this page is http://tinyurl.com/ANYL-1st.

Department-Level Questions

What rules apply to Graduate Students in the ANYL division at CU-Boulder?

• Two sets of rules apply to the Graduate Programs at CU-Boulder:
  • The Dept. of Chemistry & Biochemistry has adopted these graduate rules.
  • The Graduate School has adopted these rules.
  • A Department can only make rules more stringent than the Graduate School, never less. Thus for topics discussed in the Chemistry rules, those rules apply. For topics not discussed in the Chemistry rules, the Grad School rules apply.

Does the CHEM Dept. maintain a similar list of FAQs?

• Yes, see this link.

Should I Take TA'ing Seriously?

• Yes! We do take TAing very seriously and we expect you to put your best effort into it.
• Your experience reviewing general chemistry basics will build a stronger foundation for the knowledge you are expected to have during your oral exam.
• From past experience, there is a strong correlation between a good work ethic and performance when TA'ing and a good work ethic and performance on your thesis research. The Analytical faculty are kept informed of the performance of the TAs from the Analytical division. If you don't take TAing seriously, potential advisors will generally hear about it and worry about your work ethic, and this may discourage potential advisors from taking you for their research groups.
• Later in your PhD you may need a TA position due to a hiccup in funding etc. There are often more non-1st-yr students who would like a TA position than positions available, and if your TA performance in your 1st yr was not good, you will have lower priority for a position.

What are the Dept. Rules for Assigning TA Positions?

The department policy for assigning TA positions, based on Executive Committee decision, is as follows:

• 1) First year graduate students who are in good standing (first year students who are not in good standing drop to category #4 below).
• 2) Graduate students in their second year and beyond who are in good standing and making good progress towards their Ph.D. and who work for departmental faculty.
• 3) Non-departmental graduate students working for departmental faculty.
• 4) On a case-by-case basis: Students who are not making adequate progress or who have formally dropped into an MS track (even if they keep the Ph.D. track on their record); students who do not have an advisor; departmental students working for faculty outside the department or for national lab scientists with only a formal advisor in the department.
• 5) Students who have not fulfilled their TA duties adequately. This will be determined by the Chair based on the advice of faculty and staff.

Please note that these are guidelines and that the department reserves the right to make exceptions to these orderings on a case-by-case basis. For example, the Department may take into consideration the total requests from a particular research advisor and whether or not an advisor has funds to support a student on RA rather than TA.

ANYL Division Questions

So What is a "Division" Anyway?

• A division in the CU Chemistry Dept. is a group of professors and research groups with related interests who organize course offerings, oral exams, written cumulative exams ("cumes"), seminars, etc. The Graduate Rules of the Chemistry Dept. apply to students in all divisions.
• Analytical, Environmental, and Atmospheric Chemistry ("Analytical" or "ANYL" for brevity) is an official Division of the CU Chemistry Dept.
• Atmospheric Chemistry by itself is not an official Division for historical and practical reasons, and there are professors working on atmospheric chemistry also in the Physical Chemistry Division (especially Veronica Vaida and Steve Brown, and also partially Bierbaum and Hynes). Thus if your primary interest is in this area you may want to explore opportunities in the Physical Chemistry Division as well.

Which Professors are Part of the Analytical Division?

• See the web page with links to all current analytical faculty.

Which Professors are Active in Atmospheric Chemistry?

• See this page with links to most atmospheric chemistry-related groups at CU

What is the Role of the Analytical Division Advisor?

• The analytical division advisor (Paul Ziemann for 2013-14) is available for discussing any relevant issues with the 1st year analytical students during the year. Just email him at paul.ziemann@colorado.edu, call (303-492-5894), or drop by (Ekeley M335, or Cristol 434 after May 2014).
• There is also a meeting at the beginning of every Fall semester, typically after the first analytical seminar, with all first year students and all analytical faculty. This is a good opportunity to ask further questions.

Finding a Research Advisor

What Should I Focus on my First Semester?

• The most important thing that you have to do in your first semester (in the long run) is to choose a research advisor.

How do I go about Finding an Advisor?

• This decision should not be taken lightly. The most important factor, of course, is your research interest, but you may also consider factors such as working style, funding, size of the group, and working style (e.g. more individual vs more team-oriented or collaborative projects). Many internet resources exist to help guide your decision; a few of the many resources to help you shape the questions you may ask are here, here, and here.
• Attend the 30 min seminars given in the Fall semester by all faculty. The purpose of these seminars is to present the research carried out in their groups as well as specific opportunities for 1st year students.
• Talk to all of the faculty you are interested in working for. Not everyone will have time or funding to take you on, so identify several professors whose research groups you would be interested in joining.
• Talk to the students, postdocs, and recent graduates of the groups you are interested in.
• Attend at least one group meeting of the groups that interest you in order to get a feel for how the group works. Attend several meetings if you can.
• Note that in principle you can work for any professor in the department, although most students tend to stay within their division.
• As a 1st year in the analytical division, you are required to make a decision by Thanksgiving of your first (Fall) semester. At that time, you will email the analytical advisor with your first 3 choices for research groups, in order of preference. We will do our best to accommodate everyone in their first choice, although this is not always possible.

Can I work for Faculty in Other Departments?

• It is certainly possible to work for faculty in other departments. The main requirement is that you still need a chemistry professor who is willing to act as your in-house supervisor. The purpose of the in-house advisor is to ensure that all the rules and requirements as they apply to PhD candidates housed in the Department of Chemistry and Biochemistry are followed and that the expected level of mentorship is provided, which prevents negative surprises down the road. An example of the situations that we are trying to avoid is that a student can fall in an 'advising black hole' in which they are not getting much attention from their advisors or making much progress in their thesis research, but nobody in CHEM knows about it until several years have been partially wasted.

Can I do my Ph.D. Research Working for a Scientist in a Local National Lab?

• It is also possible to do yout PhD research with researchers at the local national labs (NOAA, NCAR, NREL), and typically about ~15% of the Analytical students follow this route. However this needs to be set up carefully to ensure that all the CHEM PhD rules are followed. You also need to find a group at one of the National Labs that is interested in hosting you. Analytical faculty may be able to provide you with contacts with relevant scientists in the National Labs).
• This route also has both important advantages (e.g. exposure to a national lab and many professional scientists, more resources...) and important disadvantages (e.g. isolation from CU and other students, no time for tinkering around with an experiment, potentially lack of sufficient mentoring...), and thus you should think hard about whether this is what you want to do and then very carefully examine the opportunities you may have in this direction. Important questions are: how available will your national lab advisor be? Have they supervised PhD students before, and if so, what was their experience? Are there regular group meetings?
• Talk to the analytical advisor if you are interested in exploring this route.
• You will also need a chemistry professor that is willing to act as your in-house supervisor.

Who has advised ANYL PhD students in recent years, other than the ANYL faculty?

• To the best of our knowledge since 2004 the non-ANYL advisors have been:
  • Dr. Eric Apel at NCAR (student: Aroob Abdelhamid 2014)
  • Dr. Tom Bruno at the NIST Labs (student: Megan Harries 2014)
  • Dr. Steve Brown at the NOAA Chemical Sciences Division (student: Erin McDuffie 2013) -- Steve is an adjoint PCHEM faculty in our Dept since 2014
  • Prof. Veronica Vaida in the CU CHEM Physical Chemistry division (students: Jay Kroll 2012, Jessica Axon 2007)
  • Prof. Joe Ryan in CU Civil & Environmental Engineering (student: Alison Craven 2007)
  • Dr. Joost de Gouw at the NOAA Chemical Sciences Division (students: Patrick Veres 2006, Daniel Bon 2004) -- Joost is an adjoint ANYL faculty in our Dept since 2014
  • Prof. Fernando Rosario-Ortiz in CU Civil & Environmental Engineering has recently expressed interest in taking ANYL students
• Note that you are not restricted to these non-ANYL advisors, rather this list may be useful since these people have advised students in our program and will be familiar with the background and skills of our students, exams and procedures, admin. system etc.

When Will I be Expected to Start Doing Research?

• You will officially join a group after Thanksgiving of your first (Fall) semester.
• While students usually do not have time to work on research full time until the summer, most advisors expect students to begin reading the appropriate literature and to attend group meetings during the Spring semester of their first year.
• Also, most advisors expect students to begin doing research as soon as their classes and TAing duties are over (~ May 9th), not on the 1st of June.

What Constitutes a PhD Thesis?

• In most of the ANYL groups, a PhD Thesis is defined as first-author 3 papers published in high-quality peer-reviewed journals. Normally, the first two have to be published and the 3rd one has to be submitted in order to be able to schedule a defense. In some groups, those details can be different, although the amount of work that constitutes a PhD thesis is similar. 3 papers is a lower limit, and you can greatly enhance your career prospects in research by publishing more than that. For further details you should discuss with your advisor.
• Additional publications in which you are a coauthor, but not the first author cannot be part of your PhD Thesis, although of course they may be very useful for learning and for your career.

Seminars

Am I Required to Attend Analytical Seminar?

• Yes, all current students (not just 1st year students) are required to attend the Analytical Seminar every week.

Is the Analytical Seminar a Course?

• Yes, it is a course (CHEM-6101) for registration purposes. First year students should register for it for both Fall and Spring. Even though 2nd and later year students are not registered, they are still required to attend the seminar every week per ANYL Division Rules.

How do I find out the ANYL Seminar Schedule?

• ANYL Seminars take place on Mondays at noon during the academic year. Pizza and coffee are provided (except if the seminar is not in Ekeley S274, due to room restrictions).
• See the detailed seminar schedule in the Wiki here and the abstracts here.
  • To make changes to the seminar schedule (e.g. to schedule your 1st or 3rd year talk, or your thesis defense), email Rosella Chavez or Anne Handschy.
  • The schedule is also available as a Google Calendar. It is a public calendar, meaning that you can add it to your personal calendar and it will display the seminars at the right time and will the relevant details (speaker, title, room, link to schedule and abstracts). To do this, just enter the following Calendar ID under "Other Calendars --> Add a friend's calendar" to the left of your Google Calendar: qm8k9heqc27sauteit0p01kpjg@group.calendar.google.com. (If the Wiki and GCal don't agree, the Wiki should be correct, but please let us know if this happens).
• Since we are a small division, not all seminar slots during the academic year may be filled. However, when seminars are scheduled, all members of the division (students, postdocs, and faculty) should attend.

Is there an Email List for ANYL Seminar Announcements?

• Email announcements and reminders are sent to the ANYL seminar email announcement list, <anyl-env-seminars@googlegroups.com>.
  • You can add yourself by following this link.
  • If you have problems adding yourself with the above link, email Rosella Chavez or Anne Handschy and ask her to add you. Be clear about which list you want to be added to.
  • If there are technical problems with the list that Rosella and Anne cannot solve, please let Jose know.

What are the Guidelines of the ANYL Seminar Program?

• You can find them here

How do I Suggest Speakers to Invite for ANYL Seminar?

• During each AY, each faculty member in the ANYL division, in consultation with their research group, should plan to invite and host one outside speaker. The costs associated with these speakers will be paid for by the Dept. of Chemistry and Biochemistry.
• Faculty members who wish to invite additional outside speakers should contact CIRES or the Environmental Program about support for these speakers.
• Faculty members can also invite local scientists as speakers, but they should attempt to choose speakers whose research would be interesting to most of the people who regularly attend the seminars.

Do I need to give an Analytical Seminar during my first semester?

• Yes, all 1st year students give a 30-minute seminar (including questions) during the first semester (two students per 1-hr seminar slot), before Thanksgiving. The subject matter is usually on research you have completed before coming to graduate school.
  • The analytical advisor should sign you up for a seminar during the advising meeting before the start of the Fall semester.

Do I need to give an Analytical Seminar during my 3rd year?

• Yes, as a 3rd-year ANYL student, you will give a full-length seminar (including questions) on the research you have completed until this point.
  • These seminars normally take place in the Spring semester. It is your responsibility to reserve a time slot when most faculty relevant to your research are present (this is marked on the seminar calendar with symbols). Do not chose slots late in the semester.
  • You will present your research during an official ANYL seminar slot, followed by Q&A from the general audience.
  • Then the general audience is excused and the ANYL faculty plus any external committee members continue for an informal feedback session. This is NOT an exam, but rather an opportunity for a wider group of faculty to provide feedback on your research accomplishments to date and on your plans towards graduation. It was established at the request of the ANYL graduate students for more structured feedback on their thesis progress.

Do I need to give an Analytical Seminar on my 2nd and 4th years?

• No

Should my PhD Thesis Defense be an Official ANYL Seminar?

• Yes, all ANYL PhD Thesis Defenses are official ANYL seminars and should be listed in the seminar schedule.
• In a PhD Defense seminar, the student will give a 40-50 minute public seminar followed by a closed session with the members of their thesis committee.
• If possible, your Defense should be scheduled in a regular ANYL seminar slot. If that is not possible a different day or time may be chosen, but those should be added to the ANYL seminar schedule.

Are there other Seminar Series at CU or Boulder that I should attend?

• Likely yes. In fact there are probably more seminars of interest that you will have time for.
• A list of related seminars is here
  • If you know of others, or if the link, location etc. changes for the above, pls update that list directly or let Jose know.

How do I sign up to go for lunch or meet with a seminar speaker?

• If you are interested in either of those, let your advisor and/or the faculty host for that specific seminar know.
• If you are going to join lunch with the speaker, normally we keep the schedules at this link.

Exams

What WRITTEN Qualifying Ph.D. Exams do I Have to Take?

• Written exams ("cumes")
  • There are 8 cumulative exams ("cumes") offered each academic year. These satisfy the written exam requirement from the Graduate School.
  • For schedule and topics see the Analytical Cume Topics and Schedule and the CHEM Dept. Cume page.
  • A cume is a one-hour written exam on a pre-announced topic. They can be multiple choice and/or free response, and can be a general chemistry (CHEM 1111/1131) final from a previous year, a series of questions based on pre-announced research paper(s), or any other topic of the professor's choosing. Each Division (Analytical, Physical, Organic, and Materials) provides a cume every time they are offered. It is up to you (the student) to decide which one you want to take.
  • Cumes are graded P/F; all students must pass 6 before they fail 11. Of those 6, 3 need to be Analytical cumes, while the other 3 can be from analytical or from other divisions.
  • 1st year students do not have to take cumes; if they choose to do so, they count as a full pass, but failures only count half of a fail. Thus we recommend taking as many cumes as possible in your first year. Students are required to take cumes in their second year; if you miss a cume without a note from your professor given to the CHEM Graduate Coordinator beforehand, it will count as a fail.
  • Cumes are generally offered on the first Saturday of the month (September is an exception because of Labor Day, as is May because of finals) and are typically given from 10-11 am. There is no cume in January due to the Winter break.
  • Topics are usually e-mailed out a week or two in advance and are posted outside the Graduate Coordinator's office in Cristol 100.
  • Old cumes to study with are available from the Chemserve server at http://chemserve.colorado.edu. (Only available from CU IP addresses; you need to VPN if you wish to access them from off campus).
• You also have to submit an independent research proposal which is unrelated to your Ph.D. research. See the CHEM Graduate Rules and the CHEM Graduate Coordinator (currently Cora Fagan-Edminster) for details. Although this proposal is not due until just before you graduate, it is a good idea to do it earlier to avoid forgetting about it and having to do it on a hurry at the end. You can suggest to your professors to make this proposal an assignment of their graduate classes, and that way you can kill two birds with one stone.

What ORAL Qualifying Ph.D. Exams do I Have to Take?

• All students take their oral comprehensive exam in their 4th semester in the program (e.g. if you start in Fall 2013, you will take the orals in Spring 2015), unless there are unusual circumstances.
• The oral exam is a 2-hr period with 3 faculty (typically 2 from ANYL and 1 from a different division), not including your research advisor. Commitees are typically assigned in December.
• You need to submit a ~6 page research proposal with references that summarizes the research you have conducted already on your PhD project, and what you plan to do to complete your PhD. Both printed and PDF copies of the proposal should be given & sent to the 3 committee members at least 2 weeks before the exam.
• You will be asked probing questions aimed at determining whether you understand the fundamentals well enough to figure out the questions that will arise in your research, and whether you can think on your feet and incorporate new information etc.
• It is a good idea to rehearse the oral exam a couple of times with older students, as often stage fright is a problem for students taking the orals.
• There are three possible outcomes: pass w/o condition, pass w/ condition (with the condition determined by the orals commitee), or fail. If you pass with condition, the oral exam is considered passed when your committee chair certifies that you have met the condition. If you fail the exam, you may request a retake to the Graduate Director. If you fail the oral exam a second time, you will have to leave the program with a Masters. That is infrequent (but not unheard of) in ANYL as we try to only admit strong students that should not have serious problems with the orals.

Do I get a raise after passing the orals?

• Higher pay (RA-II level) and reduced course fees are only given to approved Ph.D. candidates. This represents a few hundred dollars a month! Often students forget and go for months or years without this pay raise. To be admitted into candidacy you must have passed your cumes, your oral exam, and your proposal must have been approved by your advisor and one other faculty member. Then you have to fill this form and give it to the CHEM Graduate Coordinator.

Credits

(This information is adapted from information provided by Cora Fagan-Edmindster, CHEM Graduate Coordinator. Sometimes rules can change slightly and the Graduate Coordinator will typically have the most updated information)

How Many Credits Should I Register for in my 1st Year?

• It is important to complete 18 total credits in your first academic year at CU.
• Most students have not joined a research group yet at the start of the Fall semester. Those students typically register in the Fall for 2 courses (6 credits) and Analytical Seminar (1 credit). Then in the Spring they need to register for 11 credits, normally 2 courses (6 credits), Analytical Seminar (1 credit) and 4 research credits. For the research credits you need to register in CHEM-6901 (Special Topics in Chemistry), noting that there is a different section of this course for each research advisor. You can try to take 3 courses during either semester, but the workload tends to be too high and few students chose to do that.
• More infrequently, students may join a research group from the start of the Fall semester. Those students should register as above, expect adding 2 credits of research (CHEM-6901) in the Fall, and then only registering for 4 credits of research in the Spring, and still reaching 18 credits at the end of the first academic year.
• See the CHEM Graduate Coordinator if you have questions on which section of CHEM 6901 to sign up for, especially if you have not yet joined a research group.

How Many Credits Should I Register for in my 2nd Year?

• Complete any additional coursework needed to have a MINIMUM of 15 credits of coursework. Note that Analytical (and other) seminars and courses less than 3 credits usually do not count towards the departmental requirement of 15 formal coursework hours.
• Either 5 credits of CHEM 6901 in each semester (Fall and Spring), or coursework and enough CHEM 6901 to total 6 credits for each semester. You should have 30 credits completed by the end of your second academic year at CU, ideally 18 from your first year plus 12 from your second year. If you do not meet the 30 credit goal, you will have to pay higher student fees (out of your pocket) until you do complete this.

How Many Credits Should I Register for in my 3rd and later years?

• A MINIMUM of 5 credits of CHEM-8991 (Doctoral Dissertation in CHEM) EVERY FALL & SPRING. Note that there is a different section of CHEM-8891 for each research advisor.
• You can register for additional coursework that is useful for your research, and most advisors will encourage doing this in moderation. However, you will be charged the extra tuition, which your or your advisor (if you are on an RA) or the Department (if you are on a TA) will have to pay for. Due to both the time commitment and the extra tuition cost, you need to discuss this with your advisor and the Graduate Coordinator.
• If you do not take 5 credits of CHEM-8991 each semester after passing orals, then the Graduate School requires you to redo your oral exam.

Do I need to Register in the Summer?

• There is usually no requirement to be registered in the summer.
• However you must be registered in any semester in which you take an exam or defend. If you defend in the summer (after the end of May to the day before Fall classes start) you must register for 5 credits of CHEM 8991. If you defend before the end of May you will not need to register for summer, even though you will graduate in August.

Courses

How Many Courses do I Have to Take? What Courses are Allowed?

• You have to complete at least 5 courses (15 credits).
• Only courses at the 5000-level or higher count towards the 5-course requirement.
• Sometimes 4000-level (senior year) undergraduate courses in other Departments can count towards the 5-course requirement, but this is approved on a case-by-case basis. See the Graduate Coordinator for further details.
• Any lower level undergrad courses (including computer programming) do not count towards the 5-course requirement. However, that doesn't mean that you shouldn't take them if they are useful to your research.

How Should I Choose my Courses?

• The choice of the courses should be guided by:
  • (1) what you are interested in,
  • (2) what you need to take to pass the cumes and orals,
  • (3) most importantly, your research topic.
• These courses don't all need to be in Chemistry, as long as your advisor approves them, and as long as your Chemistry training is sufficient for passing the cumes and oral exam.
• 5 courses is typical of Chemistry programs, but is a low number of courses compared graduate programs in many other areas, so you should certainly consider taking a few more courses if they would be useful to your research.

What Grades am I Required to Achieve in my Courses?

• You need a grade of B- or better in each course. If you have a lower grade, then the course does NOT count towards the 5-course requirement.
• In addition, your average coursework-only GPA (not including seminars or research credits) must be 3.0 (B) or better at all times.
• If your GPA falls below a 3.0 or if you receive a grade lower than B- (which will most likely pull your GPA to below 3.0), then you will be placed on academic probation.
  • While on probation, you have lower priority for TA positions.
  • If you don't rectify the grades that led to probation within a specific time frame, you may be dismissed from the program.

Which Courses Should I Take in my first (Fall) semester?

• These are the recommended courses for 1st year analytical students (although they may not be offered every year):
  • CHEM 6101: Analytical Seminar -- Required. Offered Fall 2014.
  • CHEM-5181: Mass Spectrometry, Chromatography and Research Methods (Prof. Jimenez). Offered Fall 2014. (co-taught w/ Prof. Ziemann)
  • CHEM-5161: Analytical Spectroscopy in the Atmosphere (Prof. Volkamer). NOT Offered 2014-15. (Prof. Volkamer is on sabbatical)
  • CHEM-6031: Introduction to Nanoscience (Prof. Feldheim). NOT Offered 2013-14.
  • TBD: IGOR Programming (Prof. Browne).

Which Courses Should I Take in my second (Spring) semester?

• During your second semester the options are broader and will be tailored to your research, so you should discuss this with your advisor.
• Note that sometimes the online catalog is not up to date, so don't assume that a course is not offered if it is not listed there (and conversely). Check with the professor or department to confirm.
• The Spring courses within the ANYL division are:
  • CHEM 6101: Analytical Seminar -- Required. Offered Spring 2014.
  • CHEM-5151: Atmospheric Chemistry: Course pages from Tolbert & Jimenez. Offered Spring 2014.
  • CHEM-5141: Environmental Water and Soil Chemistry (Prof. Ziemann). Offered Spring 2014.
  • CHEM-5171: Electrochemistry. NOT Offered 2013-14. as Prof. Carl Koval is on leave at Caltech).

What Other Courses Are Often Taken by ANYL Grad Students?

• If you find out about other good courses, or if some of these courses are no longer offered, please let Jose know or update this list directly.
• It is always a good idea to search the Online Course Catalog, as course offerings are constantly changing.

• Other Chemistry Courses:
  • CHEM-5541: Chemical Dynamics. This is the physical chemistry course that is most frequently taken by ANYL students and is typically offered in the Fall. Offered Fall 2013 (Rex Skodje).
  • CHEM-5501: Advanced Topics in Physical Chemistry (aka PChem Boot Camp). Offered Fall 2013 (Casey Hynes).
  • CHEM-5531: Statistical Mechanics. Offered Spring 2014 (Joel Eaves).
  • CHEM-5591: Advanced Molecular Spectroscopy. This course is quite different from CHEM-5161 in that it focuses on the fundamentals of spectroscopy, (i.e. why do molecules absorb light at a certain wavelength, what can we learn about their energy states, etc.), whereas the focus of CHEM-5161 is the practical measurements that can be done by taking advantage of the fact that molecules absorb light at certain wavelengths, etc. Offered Spring 2014 (Mathias Weber).
  • CHEM-5201: Atmospheric Aerosol Discussions. (Only offered once in 2006, unclear whether it'll be offered again). NOT Offered 2013-14.

• Courses Relevant to Atmospheric Chemistry Groups:
  • In ATOC (Atmospheric Sciences):
    • ATOC-5050: Introduction to Atmospheric Dynamics. Recommended for atmospheric chemistry students, especially those who participate in field studies as it helps with the interpretation of ambient data. Offered Fall 2013 (John Cassano).
    • ATOC-5235: Introduction to Atmospheric Radiative Transfer & Remote Sensing. Offered Fall 2013 (Cora Randall). Follows Petty's book and Kliger's book.
    • ATOC-5300: The Global Carbon Cycle. Offered Fall 2013 (Nicole Lovenduski).
    • ATOC-5540: Mathematical Methods Offered Fall 2013 (Peter Pilewskie).
    • Physics and Chemistry of Clouds and Aerosols. Offered Fall 2013 (Katja Friedrich).
    • ATOC-5810: Planetary Atmospheres. Goes over a lot of atmospheric physics and is a less-in-depth combination of several ATOC classes on this list. (Ask Greg Schill who has taken it and liked it a lot). NOT offered Fall 2013.
    • ATOC-7500: Instrumentation. Offered Spring 2013 (Lars Kalnajs).</font>
  • In MCEN (Mechanical Engineering):
    • MCEN-5131: Air Pollution Control Engineering. (Prof. Shelly Miller)
    • MCEN-5141: Indoor Air Pollution.
    • MCEN-5161: Aerosols. (Prof. Shelly Miller or Prof. Daven Henze) This is a course in Mechanical Engineering which our students have taken and liked a lot in the past.
  • In CVEN (Civil and Environmental Engineering):
    • CVEN-5404: Water Chemistry. Prof. Joe Ryan.
    • CVEN-5424: Environmental Organic Chemistry. Syllabus and schedule, follows this great book. Offered Spring 2014 (Prof. Fernando Rosario-Ortiz)
    • CVEN-5834: Analytical Methods in Environmental Engineering. Prof. Fernando Rosario-Ortiz
    • CVEN-6404: Advanced Aquatic Chemistry. Prof. Fernando Rosario-Ortiz
    • CVEN-6414: Aquatic Surfaces and Particles. Prof. Joe Ryan
  • In CHEN (Chemical Engineering)
    • CHEN-5838: Preparation for a Faculty Position (John Falconer and Chris Bowman)

• Courses to Strengthen your Background in math, statistics, and computer programming:
  • CSCI-1300: Introduction to Computer Science (Undergraduate course, as discussed above) (May be required for the Jimenez group if you don't have background on computer programming.)
  • APPM-4570: Statistical Methods
  • ATOC-5540: Mathematical Methods in Atmospheric Sciences, see above.
  • EMEN 5005: Introduction to Applied Statistics. (Prof. Jeffrey Luftig, EMEN) (Check with Jimenez group student Amber Ortega, who took it in Fall 2011.)
  • CHEN 5128: Applied Statistics in Research and Development (Check w Megan Harries, who took it Spring 2015)
  • There are quite a few more applied math and statistics courses, some of which are not so useful for our students. Let us know if you know of one that would be useful to list here.

• If you are interested in teaching:
  • MCDB-5650: Teaching and Learning Seminar. (Jenny Knight) (Check w/ Ingrid Ulbrich or Jose-Luis Jimenez, both of them loved it.)

Do you Recommend Taking a Course in Computer Programming?

• If you have not had a serious undergraduate course in computer programming, or significant (more than 3 months full time) programming experience, we strongly recommend that you take a computer programming course during your 1st year at CU. I.e. if you don't know how to quickly use a for loop or an if statement (or especially if you don't know what those are) then you need this background.
• The introductory undergraduate programming course in Engineering (CSCI-1300) should be good, but there are at least 5 or 6 different courses you could possibly take, depending on your background and what you are interested in. The programming language used in the class is not that important: once you learn how to program in one, it is easy to "translate" to another one. Most courses use C or C++. Note that at present this is not an official requirement of the division, but it is strongly encouraged.
• Typically, first year students are too busy in their first (Fall) semester, and only get busier once they begin research (summer of the first year), so we suggest taking the programming course during the Spring semester of your first year.
• Additionally, Prof. Browne offers a fall course (specifics TBD) on programming in IGOR, the program used in the Jimenez lab.

Thesis Committee Questions

What is a Thesis Committee?

• Your Thesis Committee is a group of 5 faculty (your research advisor plus four others) who provide feedback during your PhD and evaluate your PhD thesis and thesis defense.

Who can be a member of a Thesis Committee in CHEM ?

• Faculty in Chemistry and Biochemistry
• Faculty in other departments
• Faculty from other universities or researchers with a PhD (typically from national labs such as NOAA, NCAR, NREL) often serve in thesis committees.
  • However before non-CU faculty can serve in your committee they need to be appointed as Faculty of the CU-Boulder Graduate School, following the instructions here.

Are the faculty on my Oral Exam Committee automatically in my thesis committee?

• No, although there is often some overlap.

How often does my thesis committee meet?

• We recommend meeting annually either with the whole committee or with each member individually, although this is unevenly applied. We suggests telling your advisor that this is important to you. This form should be used to document the meeting(s).

Financial Support Questions

What Fellowships Should I Apply For?

• Note that several fellowships are due in November, so look through these links earlier rather than later, and discuss with potential advisors whether you should apply in your first year.
• NSF Fellowship: The National Science Foundation Graduate Fellowship covers tuition, fees, insurance, and your stipend for three of the five academic years following the award. Applications are due in early November and require a two-page research proposal, a two-page communication on your previous research experience, a two-page communication on outreach that you have done or would like to do, three to four letters of recommendation, and official transcripts from all undergraduate schools. Generally applicants are only eligible in their senior undergraduate and first year of graduate school. You should only apply if you have already chosen a research adviser by early October. Awards are usually announced in early April. http://www.nsfgrfp.org/
• NASA Fellowship: The NASA Fellowship covers $30,000 a year for up to three years (renewal required) to be applied towards tuition, fees, insurance, and stipend. It has a deadline in early February and requires an online cover page, a six-page research proposal, a schedule of your graduate career, a one-page student CV, a one-page adviser CV, a budget, a letter of recommendation from the adviser, and unofficial transcripts from both graduate and undergraduate schools. Awards are usually announced in May. Current Solicitations are found here.
• CIRES Fellowship: The CIRES fellowship is open to graduate students whose advisers are members of CIRES (R. Volkamer, M. Tolbert, P.J. Ziemann, J.L. Jimenez, and R. Sievers). This is a one-time fellowship and can cover from one semester to one year. Only 1 student per research group can apply for this fellowship. The fellowship requires a one-page personal statement, a CV, publications, a graduate transcript, and a sealed envelope with a one-paragraph statement from the adviser. See this page for details.
• Ford Foundation Fellowship
• There are other fellowships available (EPA, DoE, minority fellowships). Talk to your adviser and older graduate students for recommendations.
• Other lists of Fellowhsips: List 1 / List 2 / List 3 / List 4 (the last one is sorted by deadline, but mixes all subjects together)

How often will I TA?

• Every incoming student TAs the first two semesters
• Typically a student may TA one every 3 or 4 semesters during their PhD. In detail this depends on the group, finances, project status etc.
• Typically after 5 or 5.5 years, students may be asked to TA while they finish their thesis, to encourage people to graduate in a timely manner.

Publication, Presentation, and Reviewing Questions

Do you have tips for writing papers?

• A must read: Whitesides Group: How to Write a Paper, Advanced Materials, 16(15), 1375 - 1377, 2004.
• A funny list of things one should not do in papers: Skillful Writing of an Awful Research Paper by Royce Murray
• Gopen and Swan on the Science of Scientific Writing, American Scientist, 1990
• A very important set of Ethical Guidelines for Publication and Peer Reviewing

I am interested in reviewing papers (or proposals), how do I get started?

• Reviewing papers is an integral part of being a scientist. It helps you view the other side of the process that all of your important work will go through in its way to publication, and you will learn a lot by doing it.
• You should read this article in Nature with advice to new reviewers and this set of Ethical Guidelines for Publication and Peer Reviewing
• You should mention this to your advisor or other experienced scientists in the field. When they get requests to review and don't have time for them (which is very common), they can suggest you as an alternative reviewer. In some cases you may work with them in a particular review. You can also let editors of relevant journals know that you are interested in reviewing, sending them an email stating your interest, along with the topics you are qualified to review and your CV.
• For proposals again you can work through your advisor. To be asked to review proposals directly, the best way is to write to the program managers of the different funding agencies, who are often desperate to find good & timely reviewers. You do need to have published a few papers in the area to be considered.
• Journal Editors and Program Managers complain bitterly of how hard it is to get people to agree to provide reviews and then to actually get them to submit the reviews the promised, so if you do a good job in the first few, you will quickly have more papers/proposals to review than time! Conversely if you don't do a good job or are slow, the well will dry very quickly.

How do I respond to the reviews of a paper?

• See this link

Do you have any tips on writing proposals?

• A usual diagram of the proposal structure
• A short useful series of tips for writing proposals
• A very good presentation from Waleed Abdatati of CU on proposal-writing (Group Password)
• A presentation from Daniel Jacob on proposals

Do you have any tips for presentations?

• Some resources on preparing presentations are:
  • A useful article for beginning speakers (never forget the first figure in your career!)
  • Some useful tips for Group Meeting presentations
  • The assertion-evidence approach to powerpoint

Do you have any tips for job interviews?

• A great infographic

Computing Questions

Do I need a personal Laptop?

• Most likely you will need a laptop for your coursework during the first year. Several classes use computer-based assignments using Igor, Labview, and other tools.

Should I get a PC or Mac Laptop?

• Labview is a key piece of software for most ANYL groups, and it is problematic and limited in Macs. The same is true with many other pieces of software used for coursework or research, many are only available for Windows. For these reasons we strongly recommend a Windows laptop (with Windows 7 as of Fall 2013). If you have a Mac laptop, you may have to borrow a laptop for the Labview coursework, which is cumbersome and limits the time in which you can practice that programming. Then you will have the same limitation later on.
• An alternative, if you have a Mac, is to install a Windows Partition using Bootcamp. That way you can use your computer as a PC or a Mac and you avoid the problems with Labview and other PC-only or PC-better software. A couple of people in our program are doing this (as of Fall 2013) and are happy with it.

What Electronic and Literature Resources are Available at CU?

• The CU libraries are excellent and they subscribe to most important electronic resources.
• The single most useful electronic resource is Web Of Science. It is a database in which you can search for journal articles using author names, keywords, etc. Most importantly, it has a list (with links) to the articles that cite or are cited by a given paper. This is an extremely useful feature, especially when researching a new subject. You can also create "Citation Alerts" for certain papers, so that you get an email every time a new paper cites a paper for which you have an alert. This is an excellent way to keep on top of the literature in some specific areas.
• We recommend following the journals of most interest to your research using Feedly. This program organizes RSS feeds provided by the journals, and acts like an "inbox" for new papers that you can check at regular intervals.
• A reference management program such as Mendeley or Endnote is essential to keep track of the references when writing papers and reports. Good free options include Mendeley and Endnote Web which can take references directly from Web of Science and are free.
• To find the electronic versions of most journals, go to http://libraries.colorado.edu and search for the periodical title.
  • You can find a list of journals relevant to atmospheric chemistry here.
• To access Web of Science and journal sites from off-campus, you need to set up VPN (Virtual Private Network) in your computer.

Is there a Recommended Software Package for Data Analysis?

• Most groups in the ANYL Division use the Igor Pro software. It is comparable to Matlab or IDL in terms of programming, but superior to those in graphing capabilities. This software is also used in several graduate classes, and the CHEM Dept. has a teaching license that allow free installation in any computer for teaching purposes.

How do I create an email list?

• See here

How can I do conference calls with multiple people?

• See here

How can I share screens with collaborators etc?

• See here

What is the easiest way to create a web page?

• See here

How do I connect to CU VPN from an Android Phone or Tablet?

• See here

Miscellaneous Questions

What Do I Need to Do For In-State Residency?

• Unless you have lived in Colorado and done your undergraduate work in Colorado, you will not be eligible for in-state residency until the fall semester of your second year (i.e. students starting grad school in Fall 2008 were eligible for in-state residency in Fall 2009).
• You need to be able to prove that you have lived in the state of Colorado for a year and have made reasonable steps towards making Colorado your (semi)permanent home. To do this, you need:
  • Lease: Make sure you have signed a lease before classes start for the semester. If you stay in a hotel around this time prior signing a lease, save your receipts.
  • State ID: For most students, this is a driver's license. These are issued at the Boulder DMV, located at 2850 Iris Avenue, #F (inside a small shopping mall), and is open from 8 am to 5 pm, Monday-Friday. For all IDs, note required documents you must bring.
    • If you have a driver's license currently valid in another state, see instructions for getting a Colorado license here.
    • If you have a driver's license in another country, see instructions for getting a Colorado license here.
    • If you do not have a driver's license, you can still get a state ID. See information here.
  • Register to Vote: You can register to vote at the DMV when you get your license.
  • Register Your Car: If you are bringing your car from out of state, please see the information here. To register your car, you must go to a different location: 1750 33rd St. from 8 am to 4:30 pm Monday-Friday. The cost of registering your car depends on age, make, and model and can vary from $20 - $300. Paying by cash or check is the least expensive.
  • Taxes: You will need to submit a copy of your taxes from the previous calendar year (and the year before that if you filed CO taxes) with your in-state residency application. Make sure you print out an official copy of your return for federal, CO, and any other state taxes.
  • Petitions for residency for the fall semester open up in March and should be filed by mid-May.
  • For more information and forms see the Registrar's page on this topic.

What About General Financial Information?

• The local bank is Elevations Credit Union. They have an office and ATMs on campus. However, a local bank is not required for residency status and most of your financial dealings will be done electronically so you are not required to have an account with Elevations.
• Your pay arrives by direct deposit. You will need to select a bank account for your paycheck to be deposited into. Hopefully this was taken care of before or at orientation; if not talk to the CHEM Graduate Coordinator in Cristol 100.
• When you TA (generally your first year and later if necessary), the department covers your tuition and ~70% of your insurance. They do NOT cover student fees; you will be responsible for paying them yourself. Fees are constant for 1-6 units and are then a higher constant value for 7+ units. They are ~$900/semester including your portion of insurance.
• Your pay as a TA is low. You need to pass orals for the RA-II which is higher pay (usually starts the third year).

Can I bring my pet to school?

• Under the Use of University Facilities Policy, animals (including reptiles and amphibians) are NOT permitted in any Facility, except:
  • Service Animals (including Service Animals in training). Service Animals in training may not reside in University Housing unless a resident has received specific approval from the Executive Director of Housing and Dining Services, or his/her designee.
  • Assistance Animals in University Housing that have been approved by the appropriate ADA Coordinator.
  • Animals used in research, instruction, official University business, or as part of an Event.
  • Fish in aquariums

• Although bringing pets into the buildings may seem like a neat idea, it actually can create more of a hazard, especially in a lab environment. In addition, there are people who have animal allergies and are extremely sensitive and it can create unnecessary health issues for those individuals. So, unless you have a service animal, please leave your pets at home.

My Question is not in this List

• Email or contact the analytical advisor, Paul Ziemann for 2013-14 (paul.ziemann@colorado.edu).

Timeline Checklist for 1st Academic Year

• This timeline is adapted from a 2010-11 document prepared by Eleanor Waxman and Kyle Zarzana. Pls let us know of any items that need to be added, updated, or removed.

July/August of Year 1

____ Moving: Make sure you are moved in to an apartment in Boulder and have signed a lease by August 23. This will allow you to have residency status for Fall of Year 2. If you stay in a hotel around this time, SAVE YOUR RECEIPTS! Your fees cover a bus pass good from mid-August through the end of May, so housing on a bus line that goes to campus is convenient.
____ Bank Account & Direct Deposit: set up your TA pay to be directly deposited in your bank account.
____ Deal with the paperwork needed for establishing in-state residency (above).
____ Register for Fall courses (see above for options) and pay attention to the credits. If you do not, your candidacy salary raise of several $100 may be delayed for a semester or more)
____ Pay for student fees and ~30% of health insurance (~$850 a semester). Fees are constant for 1-6 units and then increase to a higher constant amount for 7+ units. Be sure to pay them early so you do not get hit with late payment charges!
____ E-mail lists: There are four e-mail lists you should be on. They are the general chem/biochem & the cume e-mail lists (talk to the graduate coordinator), the seminar e-mail list (talk to Rosella), and the UGGS e-mail list.
____ Have your CU ID coded for after-hours/weekend access to Cristol and Ekeley (email Denise.Thomas@colorado.edu, unless the graduate coordinator indicates a different procedure to do this)

September of Year 1

____ September is your first opportunity to take a cume. Because fails only count as 1/2 during your 1st year, we strongly recommend taking as many as you can early.
____ Sign up for your ANYL seminar presentation, a 20 minute talk + questions (30 min. total) on some research you did in undergrad. If you did not do research, you can present on a paper that you have read.
____ Prepare your ANYL seminar presentation, before you start having exams and large projects in the classes you are taking, midterms you have to grade as a TA, etc.
____ NSF Fellowship application: NSF Application: If you know who you are going to work for and do not already have a fellowship, consider applying for the NSF fellowship. This is generally only open to graduate students in their first year. The deadline is in early November and it requires: a research proposal, a discussion of your prior research, and a discussion of outreach you’ve done or want to do (2 pages each); official transcripts from all undergraduate schools; three or four letters of reference. It provides funding for three years with no renewal required. See http://www.nsfgrfp.org/.
____ Start talking to potential advisors and their students, decisions are due by Thanksgiving.

November of Year 1

____ NSF Fellowships due
____ CU takes the whole week off for Thanksgiving- there is no other fall break- so go home for Thanksgiving! You may have to work over break in later years, so enjoy your break now!
____ Register for Spring classes. Pay attention to the credits to avoid a delay of a semester or more on your candidacy raise (Several $100 a month).
____ Send your research group preferences to the ANYL graduate advisor by Thanksgiving.

December of Year 1

____ Confirm the group that you will be joining by talking to the graduate advisor and the professor.
____ Be prepared to pay a pile of student fees in January so don’t spend all your savings over break (see Jul/Aug).
____ Go home for break! You’ll have to work for part or all of it until you graduate so enjoy it now!

January of Year 1

____ Prepare NASA Earth Sciences Fellowship if applicable
____ Prepare CIRES Fellowship if applicable
____ Pay your student fees
____ Start thinking about filing taxes and get the necessary paperwork organized.
____ If necessary, fill out FAFSA paper work. http://www.fafsa.ed.gov/

February of Year 1

____ Get in the lab and start working on research. Once you get settled in to your new classes and new TA assignments and have finished fellowship applications, you should get started in the lab working as much as possible. You aren’t usually expected to get a ton done this semester, but a good goal is to have enough experience that you can make rapid progress once summer starts.

March of Year 1

____ File your taxes. You will need your tax returns to apply for in-state tuition. The university provides free tax help, which can be useful if you have to file out-of-state taxes as well as Colorado ones.
____ Fill out your application for in-state tuition. Information can be found here. To get residency, you will need the petition form, a copy of your lease that you signed in August and if necessary any hotel receipts to prove you have been residing in Colorado since at least August 23 of Year 1, a copy of your driver’s license, a copy of your voter registration if you did that separately from getting your license, a copy of your vehicle registration, and a copy of all of your taxes (and your previous year taxes if you were a resident or part-time resident of Colorado in 2009). The petition form is long but most of it does not apply to graduate students. The petition opens in March and should be turned in by May 13th for the fall semester of your 2nd year (Detailed information on deadlines here). You can turn it in later, but the petition may not be processed before bills are sent out.

April of Year 1

____ Hear back from the NSF if you applied.

May of Year 1

____ Register for Fall classes for Year 2 (pay attention to credits, see above, to avoid delaying your candidacy salary raise).
____ Hear back from fellowships if you applied for any.
____ Turn in your residency petition by (approx.) May 13th. If you submit it later than that, you may not get in-state tuition for Fall of Year 2.
____ Start working in lab. Classes end in early May, and professors expect that you begin research as soon as classes end.
____ You made it through the most complicated part of grad school, congratulations!

Improving These FAQs

How do I edit directly this page in the Wiki?

• Ask Jose to create a login for you
• Then follow the easy instructions here

Credits

• This page was created and is currently (Fall 2013) maintained by Jose-Luis Jimenez. Many thanks to Cora Fagan-Edminster, Kyle Zarzana, Eleanor Waxman, Raea Hicks, Maggie Tolbert, Greg Schill, Aroob Abdelhamid, and many others for providing information and helping improve this page. If you find something confusing, outdated, or want to suggest information or links to be added to this page, let Jose know.