IPHY 3060 Cell Physiology Fall 2012 INSTRUCTOR EMAIL LECTURE OFFICE HOURS LAB COORDINATOR Pamela Harvey, Ph.D. BioFrontiers Institute Molecular, Cellular, and Developmental Biology JSCBB 4 th Floor pamela.harvey@colorado.edu Mon/Wed/Fri 8:00am-8:50am, MCDB A120 Mon/Wed 9-10:30am MCDB A120 (or by appointment) Molly Welsh, M.S., Instructor Department of Integrative Physiology Ramaley N189 303-492-8078 molly.welsh@colorado.edu TEACHING ASSISTANTS Sonya Belimezova Email: sonya.belimezova@colorado.edu Office: Office Hours: Forrest Brooks Email: forrest.brooks@colorado.edu Office: Clare Small 111 Office Hours: 4-5 pm Alex Everhart Email: alexander.everhart@colorado.edu Office: Office Hours: Molly Welsh Email: molly.welsh@colorado.edu Office: Ramaley N189 Office Hours: Thursdays 8-9 am COURSE MATERIALS Option textbook: Molecular Cell Biology by Lodish, Berk, Matsudaira, Kaiser, Krieger, Scott, Zipursky, and Darnell Page 1 of 7
Primary literature, reviews, and laboratory protocols posted weekly on Desire2Learn iclicker to permit interactive quizzes in class. Clicker format will be discussed in class, and clickers will be available for purchase at the CU Bookstore COURSE DESCRIPTION Cell Physiology introduces the biology of eukaryotic systems at molecular, cellular, and systems levels of integration, emphasizing the complementarities of structure and function and physiological mechanisms of regulation at the cellular and molecular level. Prerequisites: MCDB 1150, 1151, 2150 and 2151, or EBIO 1210, 1220, 1230 and 1240, IPHY 3430 (non-majors only), or IPHY 3470 (IPHY majors only). Restricted to students with 27-180 credits (Sophomore, Junior or Senior) only. COURSE FORMAT AND TEACHING STYLE Lectures: The format of this course will rely heavily on group work and class participation. Your presence will be required to do well in this class; 20% of your grade is comprised of points earned for participation in group and individual activities in class. PowerPoint slides will be used to review basic information however most of the lecture period will focus on applying this knowledge. You are encouraged to ask questions during the lecture if concepts are unclear. Questions asked during lecture are especially valuable, as others in the class may also benefit from an answer to your question. Clicker Questions: In-class questions will be given in every lecture beginning in the third week of class. During each session, several questions may be asked that will require using your clicker to respond. You will receive one point for participating in class and answering the question, and you will earn additional points if you answer the questions correctly. Instructions regarding clicker purchase and use will be provided during the first week of class. Online Resources: Assigned readings and important information will be uploaded to Desire2Learn (D2L). You will need to refer to the site several times a week for updated information. At times, accessing the site will be required for information on the next module to be released to you. Lecture presentations will be posted on D2L as both slides and handouts with an area to take notes. These will be posted the day before lecture as PDFs. They are not intended to serve as a substitute for class but rather an outline so you can obtain the information on your own if you miss class. Assigned readings will be posted each Friday for the following week. Other materials will also be posted including links to helpful tutorials and optional review articles. We will also make use of Piazza, an online forum that can be used to ask questions relevant to lecture and lab topics. You may post questions using your name or anonymously. Both students and instructors will be able to answer questions. Piazza is a very efficient means of getting information quickly and I encourage you to use it as much as possible. Questions that are emailed to me will be posted on Piazza so everyone will benefit from the answers. You will receive an email invitation to join Piazza during the second week of class. EXPECTATIONS This course seeks to foster an atmosphere in which learning is facilitated by class participation, intellectual engagement, and group support. Please respect your classmates and instructor by arriving on time. You are expected to come to class prepared. While you are in class, please stay on task and refrain from behaviors that may be distracting to your classmates. These include use of cell phones, eating, sleeping, and reading unrelated materials during classes. You may bring a Page 2 of 7
computer to class however surfing the web, playing video games, watching videos, or checking Facebook will not be tolerated. Professional courtesy and sensitivity are especially important with respect to individuals and topics dealing with differences of race, culture, religion, politics, sexual orientation, gender, gender variance, and nationalities. Class rosters are provided to the instructor with the student's legal name. Your request to address you by an alternate name or gender pronoun will be respected. Please advise me of this preference early in the semester so that I may make appropriate changes to my records. See polices at http://www.colorado.edu/policies/classbehavior.html and at http://www.colorado.edu/studentaffairs/judicialaffairs/code.html#student_code. ABSENCES During the semester, it is understandable that conditions will arise that preclude your class attendance (i.e., serious illness, death in the family, official athletic competition). Because it is not practical to offer make-ups, the lowest grade from each grading category is dropped. Thus, if you miss an exam, discussion section, or quiz, this grade will be dropped and will not count against your final average. If the university is closed for some reason, such as inclement weather, check the course website for information on schedule modification. Attendance of the laboratory is required and mandatory. A quiz will be administered during the first 10 minutes of each lab session. There will be no make-up quizzes or extended time if your tardiness prohibits you from taking a quiz. In the case of a planned absence, we will do our best to accommodate you in a different lab section so you do not miss any material. Under these circumstances, you may make arrangements for a maximum of ONE alternate lab without penalty. After this, 10% will be deducted for attending a different lab section. Absences due to health issues, deaths, official university activities or major events beyond your control (e.g., a court appearance, car accidents, etc.) may be excused by your graduate TA with appropriate documentation. Documentation to request an excusal for an unplanned absence must be submitted as soon as possible following the unplanned absence by emailing the TA. Requests for excusing planned absences or accommodating a planned absence in a different lab, must be requested in writing at least 1 week prior to the scheduled absence. Students are responsible for contacting their TA, who will then contact the TA of the alternate lab to ensure that an additional student can be accommodated. The student will be notified if their request can be accommodated. In the case of an excused absence that cannot be made up by attending a different lab section, points for the missed quiz and lab write-up will be prorated. Unexcused absences will result in a score of zero on the quiz and lab write-up. E-MAIL POLICY You should use e-mail to set up appointments with me or to contact me in the event of an emergency. If you do communicate through e-mail, messages should be written in a polite and professional manner, and they should include a salutation. Feel free to email questions about course content however answers will be posted on Piazza. If you have these questions, you are encouraged to post directly to Piazza; you will receive an answer more quickly. COURSE OUTCOMES Learning outcomes will be introduced at the beginning of each lecture. These outcomes represent the basic knowledge that you should have attained by the end of the lecture. Outcomes Page 3 of 7
will be assessed through quizzes, class activities, and exams. At the end of the course, students will: * Describe the macromolecules/structures that make up cells and understand how these elements work together to sustain life * Explain mechanisms of communication, integration and homeostasis * Apply this knowledge to analysis of experimental data * Interpret, synthesize, and critically analyze published literature in the area of cellular physiology ASSESSMENT Midterm Exam 1 10% Midterm Exam 2 10% Midterm Exam 3 10% Final Exam 15% Participation 20% Laboratory 35% A = 90% or above B = 80-89% C = 70-79% D = 60-69% F = below 60% STUDENTS WITH DISABILITIES If you qualify for accommodations because of a disability, please submit to me a letter from Disability Services in a timely manner so that your needs may be addressed. Disability Services' letters for students with disabilities indicate legally mandate reasonable accommodations. Disability Services determines accommodations based on documented disabilities. Contact: 303-492-8671, Willard 322, and htp://www.colorado.edu/disabilityservices for more information. RELIGIOUS OBSERVANCES Campus policy regarding religious observances requires that faculty make every effort to reasonably and fairly deal with all students who, because of religious obligations, have conflicts with scheduled exams, assignments or required attendance. See full details at http://www.colorado.edu/policies/fac_relig.html. DISCRIMINATION AND HARASSMENT The University of Colorado at Boulder policy on Discrimination and Harassment, the University of Colorado policy on Sexual Harassment and the University of Colorado policy on Amorous Relationships apply to all students, staff and faculty. Any student, staff or faculty member who believes s/he has been the subject of discrimination or harassment based upon race, color, national origin, sex, age, disability, religion, sexual orientation, or veteran status should contact the Office of Discrimination and Harassment (ODH) at 303-492-2127 or the Office of Judicial Affairs at 303-492-5550. Information about the ODH, the above referenced policies and the campus resources available to assist individuals regarding discrimination or harassment can be obtained at http://www.colorado.edu/odh. Page 4 of 7
HONOR CODE All students of the University of Colorado at Boulder are responsible for knowing and adhering to the academic integrity policy of this institution. Violations of this policy may include: cheating, plagiarism, aid of academic dishonesty, fabrication, lying, bribery, and threatening behavior. All incidents of academic misconduct shall be reported to the Honor Code Council (honor@colorado.edu; 303-725-2273). Students who are found to be in violation of the academic integrity policy will be subject to both academic sanctions from the faculty member and nonacademic sanctions (including but not limited to university probation, suspension, or expulsion). Other information on the Honor Code can be found at http://www.colorado.edu/policies/honor.html and at http://www.colorado.edu/academics/honorcode/. Page 5 of 7
SCHEDULE OF LECTURE TOPICS COVERED WEEK TOPICS 1 Cell components 2 Transcription, Cell signaling, Transcription factors 3 RNA processing 4 Translation, Regulation of protein synthesis and degradation MIDTERM 1: WEDNESDAY, SEPTEMBER 26 5 Mitochondria and cell metabolism 6 Lipid metabolism, cellular responses to hypoxia and temperature 7 Cytoskeletal involvement in intracellular transport and muscle movement 8 Cytoskeletal interactions with extracellular matrix MIDTERM 2: WEDNESDAY, OCTOBER 24 9 Epithelial transporters 10 Membrane potential and communication among neurons 11 Intracellular signaling pathways and regulation of nervous system function 12 Cytokine and growth factors MIDTERM 3: WEDNESDAY, NOVEMBER 21 13 Fall Break and Thanksgiving 14 Regulation of cell proliferation 15 Stem cells and cell death 16 Cancer FINAL EXAM: THURSDAY, DECEMBER 20 10:30AM -1:00PM SCHEDULE OF LABORATORY TOPICS COVERED Page 6 of 7
WEEK EXAM 1 EXAM 2 1 No lab 2 Laboratory basics 3 Bacterial DNA isolation 4 Bacterial DNA transcription 5 Blood typing and blood proteins 6 Mitochondrial DNA PCR 8 No lab 9 Muscle immunohistochemistry 10 Membrane transport 11 Onion root mitosis 12 Blood cell type 13 No lab: Fall break and Thanksgiving 14 Cell culture differentiation 15 Bioinformatics TOPICS Page 7 of 7