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 **Biology 309, Cellular Physiology **

__Professor __: Tony Contento, Ph.D.



__Contact Information __: please use email ( anthony.contento@oswego.edu ) **or** call 315-312-2032

__Lecture Meetings __: Monday, Wednesday and Friday from 10:20am to 11:15am; Snygg Hall Room 127

__Office Hours __: Mondays, Wednesdays & Fridays, 11:30am to 12:30pm, OR Wednesdays from 1:50pm to 3:00pm in Snygg Hall, Room 324B; or by appointment.



__Texts __: 1) //Molecular Biology of the Cell//, 5th ed., 2008; Authors: Bruce Alberts, Alexander Johnson, Julian Lewis, Martin Raff, Keith Roberts, and Peter Walter. Garland Science Publishing Company; ISBN: 0-8153-4105-9 (**required**)

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<span style="font-family: "Garamond","serif";">2) //Writing Papers in the Biological Sciences,// 5th ed., 2011; Author: Victoria E. McMillan. Bedford/St. Martin Publishing; ISBN-10: 0312440839 (**required**)

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__<span style="font-family: "Garamond","serif";">Course Objectives __<span style="font-family: "Garamond","serif";">: This course offers an overview of the principles and protocols linked to the basic mechanisms of cellular function and metabolism. The foci of the course are the systems involved in growth, development and survival mechanisms. Specific topics covered include: applied cell biology technique, membrane and protein synthesis and trafficking, cellular structure and reorganization, cellular signaling, and cell responses to extracellular stimuli. The course will study examples from contemporary research papers.

=__<span style="font-family: "Garamond","serif"; font-size: 12pt; font-weight: normal;">Course Outcomes __=

<span style="font-family: "Garamond","serif";">By the end of this class, you should have been able:

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 * 1) <span style="font-family: "Garamond","serif";">To study eukaryotic cell functions and relate them to cell structure, particularly in topics related to biochemistry and bioenergetics, cellular organelles, cell signaling, cell division and cell differentiation.
 * 2) <span style="font-family: "Garamond","serif";">To gain an understanding of past and modern experimental techniques used in cellular physiological research.
 * 3) <span style="font-family: "Garamond","serif";">To gain critical thinking and integrative writing skills required for understanding and applying cellular and physiological research.

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__<span style="font-family: "Garamond","serif"; font-size: 12pt; font-style: normal; font-weight: normal;">ANGEL Learning __
<span style="font-family: "Garamond","serif";">All course information for this class is on ANGEL at https://oswego.sln.suny.edu/default.asp

<span style="font-family: "Garamond","serif";">Your LakerNetID and password will allow you to enter ANGEL. If you are registered for this class, it should be listed. On ANGEL, you will be able to view this syllabus, learning objectives for each Unit, lecture notes, discussion forums for questions and Research Mastery assignments, special material supplied by your instructor, and your grades. Please be vigilant with regards to deadlines, and make sure that all of your grades have been recorded correctly on ANGEL. If there is an error, email your instructor so the error can be corrected. All scores posted on ANGEL are final after two weeks.

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__<span style="font-family: "Garamond","serif";">Grading scheme __

<span style="font-family: "Garamond","serif";">This course is based on the accumulation of a total of 450 points. There are three possible ways to accumulate points: attendance, exams, Research Mastery Exercises, and a final Grant Proposal Project. Your Final Grade will be compiled using the formula below:

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<span style="font-family: "Garamond","serif";">2 Exams (2 X 100 = 200 pts) + Research Mastery Exercises (20+20+20+20+5+5+5+5 = 100 pts) + Scientific Communication Experiences (100 points total) + Grant Proposal (150 pts total) + at least 50% attendance (50 points) = **600 points**

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<span style="font-family: "Garamond","serif";">Your letter grades are based upon the percentage of total possible points earned. Percentages will be rounded to whole numbers for grade assignment using the following grading scale:

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<span style="font-family: "Garamond","serif";">A 93-100% A- 90-92%

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<span style="font-family: "Garamond","serif";">B+ 87-89% B 83-86% B- 80-82%

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<span style="font-family: "Garamond","serif";">C+ 77-79% C 73-76% C- 70-72%

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<span style="font-family: "Garamond","serif";">D+ 67-69% D 63-66% D- 60-62%

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<span style="font-family: "Garamond","serif";">E 0-59%

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=__<span style="font-family: "Garamond","serif"; font-size: 12pt; font-weight: normal;">Exams __=

<span style="font-family: "Garamond","serif";">There will be two, take-home essay exams worth 100 points each. All exam questions are essays and worth variable points. Some of the exam questions must be uploaded to the class online textbook (see below). It will be assumed that you know the information and the concepts that you learned in lecture as part of your study regimen.

=__<span style="font-family: "Garamond","serif"; font-size: 12pt; font-weight: normal;">Class Online Textbook __=

=<span style="font-family: "Garamond","serif"; font-size: 12pt; font-weight: normal;">Biology 309 is building an online textbook based on a student-edited wiki. This textbook can be found at =

= <span style="font-family: "Garamond","serif"; font-size: 12pt;">http://cellularphysiology.wikispaces.com/ =

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<span style="font-family: "Garamond","serif";">At least one question on each exam will need to be uploaded as a wiki article to this website, so please create an account immediately and begin to experiment with the program.

=__<span style="font-family: "Garamond","serif"; font-size: 12pt; font-weight: normal;">Research Mastery Exercises __=

=<span style="font-family: "Garamond","serif"; font-size: 12pt; font-weight: normal;">For most topics that we discuss, we will discuss the information in the textbook on Mondays and we will then review a contemporary research article on Fridays. These articles will be posted for you on ANGEL as pdf files, which you will need to print or to bring to class as a digital copy. For each article, one student will be responsible for the following elements: =

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 * //<span style="font-family: "Garamond","serif";">Opening/Introductions //**


 * //<span style="font-family: "Garamond","serif";">Each individually numbered figure //**


 * //<span style="font-family: "Garamond","serif";">Closing/Conclusions //**

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<span style="font-family: "Garamond","serif";">Each student will be given 0-20 points for their efforts to describe an element of their choice. **An additional 5 points will be given for in-class discussion.** Element distribution will be performed in the Discussion Forums on ANGEL and will be handled on a “first come, first served” basis. You will be required to present an element of a paper **__four__** times this semester, with two prior to the first exam. Please do not put these assignments off until the last minute.

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__<span style="font-family: "Garamond","serif";">Grant Proposal Project __

<span style="font-family: "Garamond","serif";">You will be asked to compose a truncated, National Science Foundation-style grant proposal for a plant science project of your own design. This project may play off of a recent peer-reviewed journal paper, taking the next few steps in the research. The project may also be a unique idea of your own device, focused on some aspect of plant biology. There are several elements to this assignment including: an annotated Bibliography, at least one personal meeting with the professor, at least two peer reviews, and a Rough and Final Draft. The total proposal project is worth 150 points. A specific assignment sheet is attached to this syllabus.

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__<span style="font-family: "Garamond","serif";">Scientific Communication Experiences __

<span style="font-family: "Garamond","serif";">Science in a vacuum benefits no one. As potential future scientists, health professionals or educators, I want you to understand that science is more than just answering questions. The practice of science also includes the dissemination of those answers. Most people understand this and expect you to have all of the answers. I don’t expect you to know everything, but I do expect you to share the knowledge that you do hold. For 100 points of your final grade, you need to complete some combination of the experiences below during the Fall semester.

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//<span style="font-family: "Garamond","serif";">Volunteer locally (**1 point per hour**, preferably in a healthcare or science facility) //

//<span style="font-family: "Garamond","serif";">Answer one Biological Science question on Quora or Answer.com (**5 points**) //

//<span style="font-family: "Garamond","serif";">Present a summary of a one-hour scientific talk in-class (on- or off-campus) (**25 points**) //

//<span style="font-family: "Garamond","serif";">Give a 15-minute talk that discusses your Summer/Current Research project in-class (**50 points**) //

//<span style="font-family: "Garamond","serif";">Present your Summer/Current Research project as a poster at a Regional or National Meeting (**50 points**) //

//<span style="font-family: "Garamond","serif";">Attend all sessions for a short/chapter-length Reacting game (**50 points**, see me for details) //

//<span style="font-family: "Garamond","serif";">Attend all sessions for a long/full-length Reacting game (**100 points**, see me for details) //

//<span style="font-family: "Garamond","serif";">Present your Summer/Current Research project as a talk at a Regional or National Meeting (**100 points**) //

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 * <span style="font-family: "Garamond","serif"; text-transform: uppercase;">Lecture schedule **

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__<span style="font-family: "Garamond","serif";">Important dates __

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<span style="font-family: "Garamond","serif";">Please put on your calendars, announce to students in your classes and remind your advisees of the following procedures and dates:

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 * <span style="font-family: "Garamond","serif"; font-size: 9pt;">Instruction Begins: Semester & Q-1 Courses August 27 **


 * <span style="font-family: "Garamond","serif"; font-size: 9pt;">Registration Changes (Add/Drop Period Begins) August 27 **


 * <span style="font-family: "Garamond","serif"; font-size: 9pt;">Labor Day (No Classes) September 3 **


 * <span style="font-family: "Garamond","serif"; font-size: 9pt;">Final Date to Add an Undergraduate or Graduate Semester Course September 6 **


 * <span style="font-family: "Garamond","serif"; font-size: 9pt;">Final Date to Select Pass/Fail Option for Semester Course September 6 **


 * <span style="font-family: "Garamond","serif"; font-size: 9pt;">Rosh Hashanah (No Classes/Residence Halls Remain Open) September 17 **


 * <span style="font-family: "Garamond","serif"; font-size: 9pt;">Monday Class Schedule September 18 **


 * <span style="font-family: "Garamond","serif"; font-size: 9pt;">Final Date to Drop an Undergraduate or Graduate Semester Course September 18 **


 * <span style="font-family: "Garamond","serif"; font-size: 9pt;">Course Withdrawal Period (WP, WF, WN) in Effect Sept. 19-Oct. 26 **


 * <span style="font-family: "Garamond","serif"; font-size: 9pt;">Yom Kippur (No Classes/Residence Halls Remain Open) September 26 **


 * <span style="font-family: "Garamond","serif"; font-size: 9pt;">Columbus Day Open House October 8 **


 * <span style="font-family: "Garamond","serif"; font-size: 9pt;">Family & Friends Weekend October 19-21 **


 * <span style="font-family: "Garamond","serif"; font-size: 9pt;">Documented Late Course Withdrawal Period (WP, WF, WN) in Effect Oct. 27-Dec. 7 **


 * <span style="font-family: "Garamond","serif"; font-size: 9pt;">Veteran's Day Open House November 12 **


 * <span style="font-family: "Garamond","serif"; font-size: 9pt;">All Non-break Residence Halls Close Nov. 21 @ 8:00am **


 * <span style="font-family: "Garamond","serif"; font-size: 9pt;">Thanksgiving Recess November 21-25 **


 * <span style="font-family: "Garamond","serif"; font-size: 9pt;">All Residence Halls Reopen November 25 @ noon **


 * <span style="font-family: "Garamond","serif"; font-size: 9pt;">Classes Resume November 26 **


 * <span style="font-family: "Garamond","serif"; font-size: 9pt;">Last Day of Classes December 7 **


 * <span style="font-family: "Garamond","serif"; font-size: 9pt;">Reading Days Dec. 8-9 **


 * <span style="font-family: "Garamond","serif"; font-size: 9pt;">Final Exams Dec. 10-14 **


 * <span style="font-family: "Garamond","serif"; font-size: 9pt;">All Non-break Residence Halls Close December 15 @ 10:00am **


 * <span style="font-family: "Garamond","serif"; font-size: 9pt;">December Graduation December 15 **


 * <span style="font-family: "Garamond","serif"; font-size: 9pt;">Winter Recess Begins ** **<span style="font-family: "Garamond","serif"; font-size: 9pt;">December 17 **<span style="font-family: "Garamond","serif";">

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<span style="font-family: "Garamond","serif";">The student should know that appropriate documentation will need to be provided for the areas for which students may request a documented late course withdrawal. The dean of the school will validate any submitted documentation for: a student’s own illness, an immediate family illness, a death in the immediate family, or a change in the student’s work hours directly affecting the class in question. No documented course withdrawals will be approved after the last class day.

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<span style="font-family: "Garamond","serif";">For both types of withdrawals, all required forms must be completed and submitted and processing fees paid by the deadline specified.

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 * <span style="font-family: "Garamond","serif";">COURSE OUTLINE **<span style="font-family: "Garamond","serif";"> (tentative and subject to change other than the dates of exams)

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|| **<span style="font-family: "Garamond","serif";">Week of ** <span style="font-family: "Garamond","serif";">(**LABOR DAY**: no class on Monday)  ||  <span style="font-family: "Garamond","serif";">Methods for the study of Eukaryotic Cells   ||  <span style="font-family: "Garamond","serif";">Chapter 8 & 9   ||  <span style="font-family: "Garamond","serif";">Read Journal Article   || <span style="font-family: "Garamond","serif";">(**Rosh Hashanah**, no class on Monday)  ||  <span style="font-family: "Garamond","serif";">The Cell nucleus, chromosomes and control of gene expression   ||  <span style="font-family: "Garamond","serif";">Chapters 4 & 5   ||  <span style="font-family: "Garamond","serif";">Read Journal Article   || <span style="font-family: "Garamond","serif";">(**Yom Kippur**, no class on Wednesday)  ||  <span style="font-family: "Garamond","serif";">RNA processing and control of gene expression   ||  <span style="font-family: "Garamond","serif";">Chapter 6 & 7   ||  <span style="font-family: "Garamond","serif";">Read Journal Article   || <span style="font-family: "Garamond","serif";">(**THANKSGIVING BREAK**, no class on Wednesday or Friday)  ||  <span style="font-family: "Garamond","serif";">Mini-Grant Proposal Project Meetings (some during class-time)   ||  <span style="font-family: "Garamond","serif";">---   ||  <span style="font-family: "Garamond","serif";">Read Journal Article**;** Grant Proposal Meeting   ||
 * **<span style="font-family: "Garamond","serif";">Topic ** ||  **<span style="font-family: "Garamond","serif";">Book chapters to read **  ||  **<span style="font-family: "Garamond","serif";">Assignments **  ||
 * <span style="font-family: "Garamond","serif";">8/27/12  ||  <span style="font-family: "Garamond","serif";">Introduction to the Anatomy and Physiology of the Eukaryotic Cell   ||  <span style="font-family: "Garamond","serif";">Chapters 1 & 2   ||  <span style="font-family: "Garamond","serif";">Introductory Discussion Assignment on ANGEL, Read Journal Article   ||
 * <span style="font-family: "Garamond","serif";">9/3/12
 * <span style="font-family: "Garamond","serif";">9/10/12  ||  <span style="font-family: "Garamond","serif";">Protein Synthesis and Sorting    ||  <span style="font-family: "Garamond","serif";">Chapter 3    ||  <span style="font-family: "Garamond","serif";">Read Journal Article   ||
 * <span style="font-family: "Garamond","serif";">9/17/12
 * <span style="font-family: "Garamond","serif";">9/24/12
 * <span style="font-family: "Garamond","serif";">10/1/12  ||  <span style="font-family: "Garamond","serif";">Membranes and Transport I   ||  <span style="font-family: "Garamond","serif";">Chapter 10 &11   ||  <span style="font-family: "Garamond","serif";">Read Journal Article   ||
 * <span style="font-family: "Garamond","serif";">10/8/12*  ||  <span style="font-family: "Garamond","serif";">Membranes and Transport II   ||  <span style="font-family: "Garamond","serif";">Chapter 12 & 13   ||  **<span style="font-family: "Garamond","serif";">MONDAY **<span style="font-family: "Garamond","serif";">, MIDTERM EXAM __delivered__, Chapters 1-13; NO CLASS FRIDAY   ||
 * **<span style="font-family: "Garamond","serif";">MIDTERM ** ||  **<span style="font-family: "Garamond","serif";">MIDTERM **<span style="font-family: "Garamond","serif";">   ||  **<span style="font-family: "Garamond","serif";">MIDTERM **<span style="font-family: "Garamond","serif";">   ||  **<span style="font-family: "Garamond","serif";">MIDTERM **<span style="font-family: "Garamond","serif";">   ||
 * <span style="font-family: "Garamond","serif";">10/15/12  ||  <span style="font-family: "Garamond","serif";">Cellular determination and differentiation   ||  <span style="font-family: "Garamond","serif";">Chapters 22 & 23   ||  <span style="font-family: "Garamond","serif";">Read Journal Article**; MONDAY**, MIDTERM EXAM **__DUE__**   ||
 * <span style="font-family: "Garamond","serif";">10/22/12  ||  <span style="font-family: "Garamond","serif";">Cellular Metabolism   ||  <span style="font-family: "Garamond","serif";">Chapter 14   ||  <span style="font-family: "Garamond","serif";">Read Journal Article   ||
 * <span style="font-family: "Garamond","serif";">10/29/12  ||  <span style="font-family: "Garamond","serif";">Cellular interactions: Signal Transduction   ||  <span style="font-family: "Garamond","serif";">Chapter 14 & 15   ||  <span style="font-family: "Garamond","serif";">Read Journal Article**;** Grant Proposal Final topic due Monday   ||
 * <span style="font-family: "Garamond","serif";">11/5/12  ||  <span style="font-family: "Garamond","serif";">The Cytoskeleton   ||  <span style="font-family: "Garamond","serif";">Chapter 16   ||  <span style="font-family: "Garamond","serif";">Read Journal Article**;** Bibliography due; schedule Grant Proposal Meeting   ||
 * <span style="font-family: "Garamond","serif";">11/12/12
 * <span style="font-family: "Garamond","serif";">11/19/12  ||  <span style="font-family: "Garamond","serif";">Cell Death and Cancer   ||  <span style="font-family: "Garamond","serif";">Chapter 17 & 18   ||  <span style="font-family: "Garamond","serif";">Read Journal Article**;** Grant Proposal Rough Draft Due   ||
 * <span style="font-family: "Garamond","serif";">11/26/12  ||  <span style="font-family: "Garamond","serif";">Extracellular matrix and cellular interactions   ||  <span style="font-family: "Garamond","serif";">Chapter 19   ||  <span style="font-family: "Garamond","serif";">Read Journal Article**;** Grant Proposal Peer Reviews due; All SCIENTIFIC COMMUNICATION EXPERIENCES due by Friday   ||
 * <span style="font-family: "Garamond","serif";">12/3/12  ||  <span style="font-family: "Garamond","serif";">Cellular Physiology and Disease   ||  <span style="font-family: "Garamond","serif";">Chapter 24   ||  <span style="font-family: "Garamond","serif";">Read Journal Article**;** Grant Proposal Final Draft Due    ||
 * <span style="font-family: "Garamond","serif";">12/10/12  ||  **<span style="font-family: "Garamond","serif";">FINALS WEEK **  ||  **<span style="font-family: "Garamond","serif";">NO CLASSES **  ||  **<span style="font-family: "Garamond","serif";">FINAL EXAM, due Wednesday 12/12/12, 3:00pm **  ||

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 * <span style="font-family: "Garamond","serif";">ACADEMIC DISHONESTY **

<span style="font-family: "Garamond","serif";">Academic dishonesty will not be tolerated during this course. Academic dishonesty refers to the obtaining of unauthorized information, the tendering of information, misrepresentation in one’s work, or plagiarism. In all situations you should hand in your own work. Please refer to your SUNY Oswego Student Handbook for the specific University policy. For more information see: <span style="font-family: "Garamond","serif";">http://www.oswego.edu/administration/registrar/policy_text.html#cpii <span style="font-family: "Garamond","serif";">

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 * <span style="font-family: "Garamond","serif"; text-transform: uppercase;">Intellectual Integrity Statement **

<span style="font-family: "Garamond","serif";">SUNY Oswego is committed to Intellectual Integrity. Any form of intellectual dishonesty is a serious concern and therefore prohibited. The full policy can be found at <span style="font-family: "Garamond","serif";">[] <span style="font-family: "Garamond","serif";"> and <span style="font-family: "Garamond","serif";">[|http://www.cs.oswego.edu/~dab/CII/] <span style="font-family: "Garamond","serif";">

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 * <span style="font-family: "Garamond","serif"; text-transform: uppercase;">Disability Statement **

<span style="font-family: "Garamond","serif";">If you have a disabling condition, which may interfere with your ability to successfully complete this course, please contact the Office of Disability Services. The Office of Disability Services is available to assist students who have a legally documented disability or students who suspect that they may have a disability. If you have a disabling condition that may interfere with your ability to successfully complete this course, please contact the Office of Disability Services. (Alternative testing for students with learning disabilities is available through Disability Services.)

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 * <span style="font-family: "Garamond","serif"; text-transform: uppercase;">Attendance **<span style="font-family: "Garamond","serif"; text-transform: uppercase;">

<span style="font-family: "Garamond","serif";">Students in this class are expected to attend every class meeting, arriving before class starts. You need to attend at least 50% of all classes, or risk losing 50 points from your final grade. You will be responsible for information presented in class, some of which will be entirely supplemental to the textbook. If missing an exam is unavoidable and you have a legitimate excuse, notify me at least **__24-hours__** before the exam.

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