Course Description (from the University Catalog)

Laboratory course in protein biochemistry and enzymology. Topics covered include spectrophotometry, enzyme kinetics, electrophoresis and chromatography. In addition to one 4-hour laboratory sessions and one lecture per week, the course requires substantial out-of-class work involving computer-based data analysis and molecular modeling. Students need to take CHEM/BIOL 3510 prior to taking, or simultaneously with, this course.

Instructor and Teaching Assistants

Instructor:

David P. Goldenberg
Office: 326A Aline Skaggs Biology Building
Telephone: (801) 581-3885
E-mail:

Office hours

Tuesdays: 11:00 AM - noon
Wednesdays: 2:00 PM - 3:00 PM (starting Wed., 18 Jan.)

Occasionally, conflicts may arise, and I will have to cancel office hours for a day. I will announce any changes on Canvas.

I am also happy to meet with students at other times. The best way to contact me to set up an appointment is by e-mail, using the address above.

Teaching Assistants:

Monday:
Tuesday:
Wednesday:
Thursday:

Laboratory Sessions

The class will be divided into four laboratory sections, each meeting once a week on Mon., Tues., Wed. or Thurs. All sections will meet from 1:00 to 5:00 PM. Except for the computer sessions during the weeks of 30 January and 6 February, the laboratory sessions will be held in Room 140 in the South Biology Building (S. Biol.). For the Monday lab section, the first session will be on 9 January. The other sections will begin during the week of 16 January.

Safety Glasses

Some of the reagents you will be handling in the lab are quite caustic and can cause serious eye injury. Safety glasses will be required for all laboratory sessions. (Ordinary prescription glasses are adequate.)

Laboratory Manual

A special manual, entitled "Laboratory Experiments in Biochemistry" has been prepared for this course and can be purchased at the University Bookstore.

Laboratory Notebooks

Students will be keeping notes, storing data and preparing the lab reports using an online electronic notebook system called LabArchives. Shortly before classes start, you should receive an e-mail message from LabArchives inviting you to set up an account and gain access to the course notebook. After logging on, you should find an online notebook set up for this class, containing a page named "Getting Started". On this page you will find links to some tutorial material, and you should start getting to know the system before your first lab session.

Computer Sessions

During the weeks of 30 January and 6 February, the lab sessions will meet in Room 150 of the South Biology Building for computer sessions.

Laboratory Reports

For each of the six experiments, a summary report will be due approximately two weeks after the completion of the experiment. The due dates for the individual lab reports are indicated on the Laboratory Schedule. This report will include:
  • All of the data collected in the lab, including computer files.
  • Data analysis, as specified in the lab manual
  • A problem set for each experiment, in the lab manual.
  • For experiments 3, 4 and 5, molecular modeling files.
The reports are to be created within LabArchives and will be submitted electronically as a pdf file.

A common question is whether or not the lab reports should include sections such as an introduction, methods, results or discussion. The answer is NO! Only the elements listed above are required.

Reports turned in up to 1 day late will be accepted with a 10-point penalty. Reports turned in up to 7 days late will be accepted with a 20-point penalty. Reports will not be accepted after 7 days beyond the due date.

Although you will be working in groups of three in the laboratory, and you should share responsibility for recording data in the lab, each of you is responsible for preparing your own reports. You may certainly consult the instructor, the TAs or other students as you work. But, the actual work handed in (other than the primary lab data) must be your own. Any, data analysis files, molecular modeling files and text must be clearly distinguishable from that of other students. Other sources must be properly cited. Text from other sources must be clearly identified by quotation marks. Furthermore, extensive quotations, even with proper citation, will not be considered satisfactory answers to questions. Copying and pasting does not demonstrate mastery of the material!

If two or more students turn in work that that is identical, their action will be considered academic misconduct and appropriate sanctions will be imposed. At a minimum, the sanction will include the loss of credit for the copied work, and more severe sanctions may be imposed for more extensive infractions. (See additional information below regarding Academic Conduct.)

Additional instructions for the laboratory reports are provided in the laboratory manual.

Lecture Sessions

Two lecture sessions per week will be held on Tuesday and Thursday mornings from 9:40 - 10:30 AM, in Room L102 of the Warnock Education Building (WEB). The classroom is in a lower level of the building and is most directly accessible from a small courtyard at the West end of the building, as shown below:
WEBmap
Regular class attendance is expected of all students. Although slides from many of the lectures will be posted on the class web site, these should not be viewed as a substitute for attending class.

Clickers

The TurningPoint audience response system will be used to facilitate interactive learning during the lectures. Some responses will be graded and will count for 5% of the course grade. Clickers can be purchased from the University Campus Store and can be sold back to the store at the end of the semester.

Either the older NXT or newer QT devices should work. For this class, you do not need a TurningPoint account or license, and you should not try to register your clicker for this course through the Turning Point Cloud service, though you may need to do this for other courses. You will need to register your clicker through an ``assignment'' on Canvas. If at all possible, please have your clicker registered by the first lecture.

Although there is a TurningPoint smart-phone app (ResponseWare) that can, in principle, be used instead of a clicker, my experience with it has not been good, and it will not be supported for this class.

Text book

There is no required text book for this course. There is, however, a recommended text entitled "Fundamental Laboratory Approaches for Biochemistry and Biotechnology" (2nd ed.), by A.J. Ninfa, D.P. Ballou and M. Benore. Copies of this text are available at the bookstore, and copies will be placed on reserve at Marriott Library. In addition, it may be helpful to review material from a standard biochemistry text, such as those by Berg, Tymoczko and Stryer or by Voet and Voet.

Quizzes

There will be three quizzes during the lecture sessions on the following dates:
  • Thursday, 2 February
  • Thursday, 9 March
  • Thursday, 20 April

Each of the first two quizzes will be about 25 minutes long and will cover material from the lectures and laboratory sessions since the previous quiz. The third quiz will be 50 minutes long and will be cumulative. This quiz will count twice as much as each of the other two. As a study guide, quizzes from previous years are available for download.

Grades

The course grade will be based on the laboratory reports, quizzes and responses to in class questions (via clickers), weighted as follows:
  • Laboratory reports: 70%
  • Quizzes: 25%
  • In class clicker responses: 5%
The following represent maximum cutoffs for determining class letter grades:
  • A: 92-100% (including A-)
  • B: 82-91% (including B- and B+)
  • C: 70-81% (including C- and C+)
  • D: 60-69%
  • E: < 60%
Depending on how things go, the grade cutoffs may be revised downwards, i.e. to make the grading more generous. The cutoffs will not be moved upwards to make the grading less generous.

Important Dates

  • Last day to drop (delete) classes: Friday, 20 January (No tuition penalty; class does not appear on record.)
  • Last day to add classes, elect CR/NC or audit classes: Friday, 20 January
  • Last day to withdraw from classes: Friday, 3 March (No tuition refund, "W" appears on transcript.)

Excused Absences

If you must miss a lab session because of illness, family emergency or an official University of Utah activity, please let the instructor and your TA know as soon as possible. If it can be arranged, you may be able to do the lab work by joining another lab group on a different day of the week. If this cannot be arranged, you can obtain the lab data from the other members of your group and complete the lab report using that data.

If you miss a lecture because of illness, family emergency or an official University of Utah activity, please notify the instructor. Any clicker points missed because of an authorized absence will not be included in calculating the average for your clicker responses.

Special Accommodations

The University of Utah seeks to provide equal access to its programs, services and activities for people with disabilities. If you will need accommodations in the class, reasonable prior notice needs to be given to the Center for Disability Services, 162 Union Building, 581-5020 (V/TDD). CDS will work with you and the instructor to make arrangements for accommodations.

Title IX: Addressing Sexual Misconduct

Title IX makes it clear that violence and harassment based on sex and gender (which Includes sexual orientation and gender identity/expression) is a civil rights offense subject to the same kinds of accountability and the same kinds of support applied to offenses against other protected categories such as race, national origin, color, religion, age, status as a person with a disability, veteran’s status or genetic information. If you or someone you know has been harassed or assaulted, you are encouraged to report it to the Title IX Coordinator in the Office of Equal Opportunity and Affirmative Action, 135 Park Building, 801-581-8365, or the Office of the Dean of Students, 270 Union Building, 801-581-7066. For support and confidential consultation, contact the Center for Student Wellness, 426 SSB, 801-581-7776. To report to the police, contact the Department of Public Safety, 801-585-2677(COPS).

Academic Conduct

In order to ensure that the highest standards of academic conduct are promoted and supported at the University, students must adhere to generally accepted standards of academic honesty. Acts of academic misconduct include cheating, plagiarizing, research misconduct, misrepresenting one's work, and inappropriately collaborating. Suspected cases of academic misconduct will be dealt with according to the rules found in the Student Code, University Policy 6-400(V) . All instances of academic misconduct are recorded in a University database, which is shared by all academic units on campus.

Disclaimer

The information provided here and in the syllabus does not represent a binding legal contract. It may be modified by the instructor when the student is given reasonable notice of the modification.