2013-2014 Course Selection Book - SUNY Upstate Medical University

2013-2014 COURSESCollege of Graduate Studies

Table of ContentsAcademic Calendar 1New York State Law - Section 224A 3Registration Information 4Registration Instructions 6ID Cards. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .6Car Registration and Parking . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6Student Health . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6Health Insurance . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6Veteran’s Educational Benefits . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6Special Students (Non-matriculated) . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .6Agreement between United University Professions and the State of New York 1982-85:Article 36.1 Program for Tuition Assistance . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 7Syracuse University (SU) and COES&F Students. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .7Family Educational Rights and Privacy Act . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 7Core Curriculum 9Ph.D. Candidates . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 9Foundations of Molecular and Cellular Biology GS616. . . . . . . 4 Credit Hours 11Introduction to Applied Biostatistics and Research Design GS617. . . . . . . 2 Credit Hours 11Responsible Conduct of Scientific Research (Research Ethics) I GS618. . . . . . . . 1 Credit Hour 12Responsible Conduct of Scientific Research (Research Ethics) II GS619. . . . . . . . 1 Credit Hour 12Graduate Student Research Opportunities GS604 . . . . . . 0 Credit Hours 13Biomedical Sciences Laboratory Rotations GS612. 2 Credit Hours/rotation 13Introduction To The Presentation And Analysis Of Scientific Literature:Journal Club GS89 . . . . . . . . 1 Credit Hour 13Biochemistry And Molecular Biology 14Biochemistry & Molecular Biology Laboratory Rotations B609 . . . . . . . 2 Credit Hours 14Methods Of Biochemistry And Molecular Biology Research B617. . . . . . . . Variable Credit 14Biochemistry SeminaR B620 . . . . . . . 0 Credit Hours 14Independent Studies In Biochemistry And Molecular Biology B638 . . . . 1 – 3 Variable Credit 14Gene Expression and Epigenetic Regulation B647 . . . . . . . 3 Credit Hours 15Research Design in Biochemistry & Molecular Biology B648 . . . . . . . . . . . 3 credits 15Topics in Quantitative Biology B649 . . . . . . . . . . . . 1 credit 15Scientific Writing in Biochemistry B650 . . . . . . . . 1 Credit Hour 16Protein Sorting and Vesicular Trafficking B664 . . . . . . . . 1 Credit Hour 16Bioenergetics B665 . . . . . . . 2 Credit Hours 16Protein Structure DETERMINATION B666 . . . . . . . 2 Credit Hours 16RESEARCH IN BIOCHEMISTRY B700 . . . . . . . Variable Credit 16SB 3 17Biological and Medical Physics (SU: PHY 615) B611 . . . . . . . 3 Credit Hours 17Molecular Modeling (SU: BCM684) B654 . . . . . . . 3 Credit Hours 17Cell and Developmental Biology 18HUMAN ANATOMY A505 . . . . . . . 9 Credit Hours 18INTRODUCTION TO NEUROSCIENCE (Same as N507) A507 . . . . . . . 3 Credit Hours 18MICROSCOPIC ANATOMY A517 . . . . . . . 4 Credit Hours 18Graduate Cellular Anatomy A613 . . . . . . . . . . . 2 credits 19

Contemporary Cellular, Molecular and Developmental Biology A614 . . . . . . . 3 Credit Hours 19SPECIAL TOPICS IN ANATOMICAL SCIENCES A615 . . . . . . . Variable Credit 19METHODS OF Cell & Developmental RESEARCH A617 . . . . . . . Variable Credit 20NEUROANATOMY LAB (Same as N621) A621 . . . . . . . 2 Credit Hours 20Developmental Biology A622 . . . . . . . 2 Credit Hours 20RESEARCH IN Cell & Developmental Biology A700 . . . . . . . Variable Credit 20Microbiology and Immunology 21MEDICAL MICROBIOLOGY M510 . . . . . . 7 Credit Hours* 21PROBLEMS IN CELLULAR AND MOLECULAR IMMUNOLOGY M610 . . . . . . 3 Credit Hours 21CURRENT CONCEPTS IN VIROLOGY M616 . . . . . . . 3 Credit Hours 21DIRECTED INDIVIDUAL STUDY IN MICROBIOLOGICAL ANDIMMUNOLOGICAL RESEARCH METHODS M623. . . . . . . Variable Credit 21SEMINAR AND JOURNAL CLUB IN MICROBIOLOGY AND IMMUNOLOGY M624 . . . . . . . 2 Credit Hours 22METHODS OF MICROBIOLOGY AND IMMUNOLOGY RESEARCH M626 . . . . . . . Variable Credit 22Introduction to Virology M627 . . . . . . . 2 Credit Hours 22Introduction to Immunology M622. . . . . . . 2 Credit Hours 22RESEARCH IN MICROBIOLOGY M700 . . . . . . . Variable Credit 22M.D. and Ph.D. Courses 23Research Design for Physician-Scientists MDPH 601 . . . . 3 Credit Hours 23Neuroscience 23Introduction to Neuroscience (Same as A507) N507 . . . . . . . 3 Credit Hours 23NEUROSCIENCE (SU: BIO 407) N6012. . . . . . . 3 Credit Hours 23Cell Physiology of Excitable Cells (Same as PHA602 & PHY602) N602 . . . . . . . 2 Credit Hours 24TOPICS IN SIGNALING IN THE AUTONOMIC AND CENTRAL NERVOUS SYSTEMS N603 . . . . . . . 2 Credit Hours 24TOPICS IN DEVELOPMENTAL NEUROBIOLOGY N610 . . . . . . . 2 Credit Hours 24Topics in Vision I N616 . . . . . . . 2 Credit Hours 25Methods of Neuroscience Research N617 . . . . . . . Variable Credit 25Topics in Vision II N618 . . . . . . . 2 Credit Hours 25Neurobiology of Disease N619 . . . . . . . 2 Credit Hours 25Advanced topics in receptors and cell signaling (Same as PHY620) N620 . . . . . . . . 1 Credit Hour 26NEUROANATOMY LAB (Same as A621) N621 . . . . . . . 2 Credit Hours 26Critical Analysis of Neuroscience Communications N622 . . . . . . . . . . . . . . . . . 26½ Credit/ Semester, 1 Credit/Academic YearSystems Neuroscience N623 . . . . . . . 3 Credit Hours 26GRANT WRITING COURSE IN NEUROSCIENCE & PHYSIOLOGY(Same as PHY627) N627 . . . . . . . 3 Credit Hours 27NEUROBIOLOGY OF ADDICTION (SUNY Binghamton Course #PSYC 576-01) N628 . . . . . . . 2 Credit Hours 27TOPICS IN CELLULAR AND MOLECULAR NEUROBIOLOGY N653 . . . . . . . 2 Credit Hours 27TOPICS IN SENSORY SYSTEMS N654 . . . . . . . 2 Credit Hours 27RESEARCH ROTATIONS IN NEUROSCIENCE N675 . . . . . . 1-5 Credit Hours 28RESEARCH IN NEUROSCIENCE N700 . . . . . . . Variable Credit 28Pharmacology 28PHARMACOLOGY PHA540 . . . . . 7 Credit Hours* 28Cell Physiology of Excitable Cells (Same as N602 & PHY602) PHA602 . . . . . 2 Credit Hours 28PRINCIPLES OF PHARMACOLOGY PHA610. . . . . . . 1 Credit Hour 29CARDIOVASCULAR PHYSIOLOGY AND PHARMACOLOGY PHA612. . . . . . . 1 Credit Hour 29APOPTOSIS AND CANCER PHARMACOLOGY PHA615. . . . . . . 2 Credit Hour 29Methods of PhARMACOLogy Research PHA617 . . . . . . Variable Credit 29Current topics in Pharmacology PHA630 . . . . . . 1 Credit Hour 30Autonomic Pharmacology PHA619. . . . . . . 1 Credit Hour 30

Cancer Biology and Therapeutics PHA621. . . . . . . 1 Credit Hour 30PHARMACOLOGY SEMINAR PHA645 . . . . . 0 Credit Hours 30PHARMACOLOGY LABORATORY ROTATIONS PHA653. . . . . . Variable Credit 31RESEARCH IN PHARMACOLOGY PHA700 . . . . . Variable Credit 31Physiology Program 31Cell Physiology of Excitable Cells (Same as N602 & PHA602) PHY602. . . . . . 2 Credit Hours 31Biomaterials and Medical Devices (SU COURSE BEN468/668) PHY603. . . . . . 2 Credit Hours 32Methods of Physiology Research PHY617. . . . . . . . .Variable Credit 32Advanced topics in receptors and cell signaling (Same as N620) PHY620. . . . . . . 1 Credit Hour 32GRANT WRITING COURSE IN NEUROSCIENCE & PHYSIOLOGY (Same as N627) PHY627 . . . . . . 3 Credit Hours 32JOURNAL CLUB IN PHYSIOLOGY PHY652. . . . . . . 1 Credit Hour 33SYSTEMS PHYSIOLOGY PHY657. . . . . . 6 Credit Hours 33DIRECTED INDIVIDUAL STUDY IN PHYSIOLOGICAL RESEARCH METHODS PHY658Variable Credit . . . . 33PHYSIOLOGY SEMINAR PHY659 . . . . . . . 1 Credit Hour 33RESEARCH IN PHYSIOLOGY PHY700. . . . . . Variable Credit 33Additional Courses 34Grant Writing GS605 . . . . . . 3 Credit Hours 34SYSTEMS BIOLOGY OF GENETICS, GENOMICS AND PROTEOMICS GS628. . . . . . . 4 Credit Hours 34BIOMOLECULAR X-RAY DIFFRACTION: THEORETICAL BASIS ANDEXPERIMENTAL PROCEDURES GS632 . . . . . . 4 Credit Hours 35ETHICS AND THE HEALTH PROFESSIONS CCFM 6402 . . . 3 Credit Hours 35DYING AND DEATH IN AMERICAN LITERATURE CCFM 6405 . . . 3 Credit Hours 35First Person: Narratives of Illness, Disability and Identity CCFM6427 . . . 3 Credit Hours 36Orthopedic Basic Science OBS610 1CreditHours Hour/semester 36

Academic Calendar1

New York State Law - Section 224AStudents Unable Because of Religious Beliefs to Attend Classes on Certain Days1. No person shall be expelled or be refused admission as a student to an institution of highereducation for the reason that he/she is unable, because of his/her religious beliefs, to attendclasses or to participate in any examination, study or work equirements on a particular day ordays.2. Any student in an institution of higher education who is unable, because of his/her religiousbeliefs, to attend classes on a particular day or days shall, because of such absence on theparticular day or days, be excused from any examination or any study or work requirements.3. It shall be the responsibility of the faculty and of the administrative officials of each institutionof higher education to make available to each student who is absent from school, becauseof religious beliefs, an equivalent opportunity to make up any examination, study, or workrequirements which he may have missed because of such absence on any particular day or days.No fees of any kind shall be charged by the institution for making available to the said studentssuch equivalent opportunity.4. If classes, examinations, study or work requirements are held on Friday after four o’clock postmeridian or on Saturday, similar or makeup classes, examinations, study, or work requirementsshall be made available on other days, where it is possible and practicable to do so. No specialfees shall be charged to the student or these classes, examinations, study, or work requirementsheld on other days.5. If effectuating the provisions of this section, it shall be the duty of the faculty and of theadministrative officials of each institution of higher education to exercise the fullest measure ofgood faith. No adverse or prejudicial effects shall result to any student because of his availinghimself/herself of the provisions of this section.6. A copy of this section shall be published by each institution of higher education in the catalogof such institution containing the listing of available courses. It shall be the responsibility of theadministrative officials of each institution of higher education to give written notice to studentsof their rights under this section, informing them that each student who is absent from school,because of his/her religious beliefs, must be given an equivalent opportunity to register forclasses or make-up any examination, study or work requirements which he/she may have missedbecause of such absence on any particular day or days. No fees of any kind shall be charged bythe institution for making available to such student such equivalent opportunity.7. As used in this section, the term “institution of higher education” shall mean schools underthe control of the board of trustees of the State University of New York or the board of highereducation of the city of New York or any community college.3

Registration InformationFALL SEMESTER, 2013Weiskotten Hall, Rm. 3124NEW STUDENTS ONLY - Thursday, August 22RETURNING STUDENTS - July 22 - August 2Registration for returning students will take place in the Graduate Studies Office, Weiskotten Hall, Room3124, July 22 - August 2. Registration packets will be provided to the departments. Packets for incomingstudents will be available in Weiskotten Hall, room 3124.Late Payment FeeA $50 late payment fee will be charged to all students if payment of tuition is not made by due date onmailed bill.In addition, a $40 fee will also be assessed if registration is not completed by August 2.Student Health FormsAll required health forms of students enrolled in graduate programs must be completed and on file withthe Student Health Service prior to registration.Tuition RatesState Residents ................................. $4,935.00/semester411.00/credit hourOut-of-State Residents .......................... $9,175.00/semester765.00/credit hour(12 credit hours or more)(11 credit hours or less)(12 credit hours or more)(11 credit hours or less)Fees*College Fee (Required from all students) ............... $12.50/semester (12 credit hours or more)0.85/credit hour (11 credit hours or less)Activity Fee (Paid fall and spring) .................... $65.00(9 to 12 credit hours)32.50 (6 to 8 credit hours)16.25 (1 to 5 credit hours)Health Service Fee (Paid fall and spring) ............. $107.50/semester (12 credit hours or more)8.95/credit hour (11 credit hours or less)Disability Insurance Fee (Paid yearly) ............. $65.00IMT Fee (Paid fall and spring) ..................... $107.50/semester (12 credit hours or more)8.95/credit hour (11 credit hours or less)*Tuition rates are based on semester charges. These rates and fees are subject to change.Fees are non-refundable.4

SPRING SEMESTER, 2014Weiskotten Hall, Rm. 3124November 25 - December 6Registration will take place in the Graduate Studies Office, Weiskotten Hall, Room 3124, November 25 -December 6. Registration packets will be provided to the departments. Packets for incoming studentswill be available in Weiskotten Hall, room 3124.Late Payment FeeA $50 late payment fee will be charged to all students if payment of tuition is not made by due date onmailed bill.In addition, a $40 fee will also be assessed if registration is not properly completed by December 6.Student Health FormsAll required health forms of students enrolled in graduate programs must be completed and on filewith the Student Health Service prior to registration.Tuition RatesState Residents .................................$4,935.00/semester411.00/credit hourOut-of-State Residents ...........................$9,175.00/semester765.00/credit hour(12 credit hours or more)(11 credit hours or less)(12 credit hours or more)(11 credit hours or less)Fees*College Fee (Required from all students) ...............$12.50/semester (12 credit hours or more)0.85/credit hour (11 credit hours or less)Activity Fee (Paid fall and spring). .....................$65.00(9 to 12 credit hours)32.50 (6 to 8 credit hours)16.25 (1 to 5 credit hours)Health Service Fee (Paid fall and spring) ............. $107.50/semester (12 credit hours or more)8.95/credit hour (11 credit hours or less)Disability Insurance Fee (Paid yearly) ............... $65.00IMT Fee (Paid fall and spring) ........................ $107.50/semester (12 credit hours or more)8.95/credit hour (11 credit hours or less)*Tuition rates are based on semester charges. These rates and fees are subject to change. The collegeand activities fees are non-refundable.5

Registration InstructionsSUNY Graduate StudentsThe enclosed (multi-part) course registration form should be completed by you and signed by youradvisor. Indicate number(s) and title(s) of course(s), where taken (SUNY, SU, COES&F). Graduate studentswho intend to register for classes at SU and/or the COES&F are also required to register there. Specialregistration packets and course schedules for these schools are available in the Graduate Studies Office,Weiskotten Hall, Room 3124.The New York State Tuition Waiver application (enclosed only if you are eligible) is to be completed byyou, signed by your department chairman, and submitted to the Office of Graduate Studies, NO LATERTHAN THE DATE OF REGISTRATION. Waivers will not be accepted after that date unless approved by theCollege of Graduate Studies.Add/Drop actions for SUNY Upstate Medical University must be channeled through the SUNY UpstateMedical University College of Graduate Studies. [Please note add/drop dates on academic calendar infront of book]ID CardsID cards are issued or validated in the PAYROLL OFFICE located in Jacobsen Hall, Room 100, on the dayof registration. A TUITION RECEIPT is required.Car Registration and ParkingCar registration and the issuance of parking permits is completed at the Parking Office which is locatedin the University Hospital, Room 1801. Car registration and ID cards will be required for verification. TheParking Office is open Monday through Friday, from 7AM to 4PM.Student HealthThe college has a student health service which is located on the fourth floor of Jacobson Hall. Adescription of the services available through Student Health is in the Student Handbook which canbe obtained from the Office of Graduate Studies, or the Office of Student Affairs, Campus ActivitiesBuilding, Room 202.Health InsuranceHealth Insurance coverage is mandatory for all students. Information describing a student healthinsurance plan is available in the Office of Graduate Studies, or the Office of Student Affairs in theCampus Activities Building, Room 202.Veteran’s Educational BenefitsStudents eligible for VA benefits should contact Ms. Jennifer Martin-Tse, Registrar, SUNY Upstate MedicalUniversity at Syracuse, 155 Elizabeth Blackwell Street, Room 203, Syracuse, NY 13210 (315/464-4604).Special Students (Non-matriculated)To be eligible for registration in a graduate course as a “special” or “non-matriculated” student, thestudent should be employed at the Upstate Medical University or be a student in one of the Center’sacademic programs (approval of program director or supervisor is required) or obtain special studentcategory upon formal application to the Dean of the College of Graduate Studies by the chairman of adegree granting program.Registration forms for “special” students may be obtained from the Office of Graduate Studies,Weiskotten Hall, Room 3114, 766 Irving Avenue, Syracuse, NY 13210.6

Agreement between United University Professions and the State of New York 1982-85: Article 36.1Program for Tuition AssistanceThe State agrees to continue the existing Tuition Assistance Program using a “space available” concept.When space is available, employees may enroll in a course on a tuition free basis, subject to thefollowing requirements:1. The University determines when space is available, recognizing that such determination must bemade in sufficient time to permit enrollment by employees.2. Employees must meet course prerequisites.3. All fees other than tuition shall be paid by employees.4. Employees may enroll in a MAXIMUM of one course per semester in special session, for example,summer session and intersession.5. Minimum enrollment requirements established by the university as a necessary condition foroffering a course shall not be affected by students interested in enrolling in a course on a spaceavailable basis.6. The program shall continue for the term of the agreement.Syracuse University (SU) and COES&F StudentsPermission is required of your home college advisor(s) and the course instructor(s) of the College ofGraduate Studies, SUNY Upstate Medical University.Prior to registering at your home college, appropriate SUNY registration forms need to be completed.They are available at the Office of Graduate Studies, 766 Irving Avenue, Room 3124, Syracuse, NY 13210.Instructions concerning payment of tuition for SUNY Upstate Medical University courses are listed in theSyracuse University Registration Booklet.ADD/DROP actions for Syracuse University must be channeled through the SUNY Office of GraduateStudies.Family Educational Rights and Privacy ActThe Family Educational Rights and Privacy Act of 1974 requires us to make provisions for complying withSection 99.5, “Directory Information.” Directory information is defined as information which may bereleased to the public. If a student wishes to restrict the release of directory information, s/he shouldindicate any restrictions at the time of registration. Directory information includes all of the following:NameAddressTelephone NumberDate/Place of BirthProgram of StudyDates of AttendanceDegrees/Awards Received from the most recent previous educational agency or institutionattendedThe enclosed registration form (computer data sheet) complies with the above Family EducationalRights and Privacy Act. Please present your registration form along with the (multi-part) courseregistration form and biographical data sheet (incoming or special, non-matriculated students only)when you come to the Registration Desk.7

CORECURRICULUMCore CurriculumPh.D. CandidatesWith the exception of the students enrolled in the M.D./Ph.D.program, all PhD students are required to takethe following “core” courses:First YearFallGS604 Graduate Student Research Opportunities – 0 crGS612 Biomedical Sciences Laboratory Rotations (1st Rotation) – 2 crGS616 Foundations of Molecular and Cellular Biology – 4 crGS617 Introduction to Applied Biostatistics and Research Design – 2 crGS618 Responsible Conduct of Scientific Research (Research Ethics) I – 1 crSpringGS612 Biomedical Sciences Laboratory Rotations (2nd Rotation) – 2 crGS612-1 Biomedical Sciences Laboratory Rotations (3rd Rotation) – 2 crGS892 Introduction to the Presentation and Analysis of Scientific Literature: Journal Club – 1 crSecond YearFallGS619 Responsible Conduct of Scientific Research (Research Ethics) II – 1 crIn addition, students must take additional advanced electives.M.S. CandidatesMS students are required to take:First YearFallGS618 Responsible Conduct of Scientific Research (Research Ethics) I – 1 crSecond YearFallGS619 Responsible Conduct of Scientific Research (Research Ethics) II – 1 crAdditional courses determined by degree granting program and Advisor.MD/PhD CandidatesMD/PhD students are required to take in the Fall semester of the first year in PhD portion of the MD/PhDProgram:GS618 Responsible Conduct of Scientific Research (Research Ethics) I – 1 crGS619 Responsible Conduct of Scientific Research (Research Ethics) II – 1 crAdditional courses determined by MD/PhD Program, degree granting program and Advisor.9

FOUNDATIONS OF MOLECULAR ANDCELLULAR BIOLOGYGS6164 Credit HoursCoordinators (Course directors)Dr. Stephan WilkensDr. David MitchellDr. Christopher TurnerDr. Jennifer MoffatPeriod Offered:FallCourse Philosophy and Goals: This course seeks tobring a collection of incoming students with diverseinterests and backgrounds up to a basic level ofunderstanding of biomedical sciences in preparationfor joining a research lab at SUNY Upstate. Lecturematerial is presented so as to engage students inthe methods and experiments that have led to ourcurrent understanding of cell function, in particularby using real examples from the primary literaturecoupled with a problem-based approach. The courseis sufficiently demanding so as to promote thosestudents who have the level of commitment requiredto succeed in the graduate program.Course Description: This course provides acomprehensive background for students in theBiomedical Sciences Program. It covers fundamentaland advanced topics in biochemistry, molecularbiology, and cell biology. Lectures and discussionsare based on primary research articles, referencebooks, and lecture notes. Major divisions of thecourse are 1) properties of biomolecules, 2) cellorganization and regulation, and 3) cell function.Location:Room 3113 Weiskotten HallINTRODUCTION TO APPLIEDBIOSTATISTICS AND RESEARCH DESIGN. . . . . . . . . . . . . . . . . . . . . . GS6172 Credit HoursCourse Coordinator(s):Drs. Dongliang Wang and Frank MiddletonPeriod Offered:FallCourse Description: This course introduces the basicprinciples of biostatistics and experiment design forresearch in the biomedical sciences. Emphasis will beplaced on application of biostatistical methods andinterpretation of the outputs of statistical software. Aconcept-focused approach will be used to teach thestatistical content, which includes descriptive statistics,probability distributions, point and interval estimationof population parameters, and hypothesis testing. Avariety of one and two-sample parametric and nonparametrictests for continuous and categorical dataare covered, as are one and two-factor ANOVA, tests forbivariate frequency data, and simple linear regression.The second portion of the course will require that studentsapply and reinforce their new-found knowledgeto critically assess experiment designs and statisticalmethods used in examples from the scientific literature.Textbook(s):Fundamentals of Biostatistics (7 th edition), BernardRosner - Brooks/Cole ISBN 053873349-7Location:Room 3111 Wesikotten Hall11

RESPONSIBLE CONDUCT OF SCIENTIFICRESEARCH (RESEARCH ETHICS) I. . . . . . . . . . . . . . . . . . . . . . GS6181 creditCourse Coordinator:Dr. Robert OlickPeriod Offered:Fall SemesterCourse description: Biomedical scientific research is acomplex undertaking, with a theoretical framework forhow scientific progress should be made, professionalnorms about acceptable scientific conduct, and anever-expanding array of ethical challenges followingon the heels of technical advances. The complexityand rapid advance of biomedical research, as well asnumerous instances of deception, conflicts of interest,and inappropriate care of animals or humans involvedin research, suggest that merely having good intentionsis not always sufficient. This course will cover core informationin the responsible conduct of scientific researchfor early-stage graduate students in order to:• improve their moral reasoning skills in thecontext of scientific research;• deepen their understanding of the professionalnorms of science; and• gain an understanding of the regulatoryframework and ethical principles governingbiomedical research.Course topics include an introduction to scientific andmoral reasoning, academic honesty and plagiarism,authorship and peer review, conflicts of interest, collaborativeresearch, mentoring, data ownership/managementand intellectual property, and the regulatoryframeworks governing the use of humans and animalsin research. A series of short case analyses (problemsets) will be used to assess student learning.Textbook(s):Macrina FL, Scientific Integrity: An Introductory Textwith Cases (3rd edition), 2005: Washington DC: AMSPress.Dates:Wed., 10:00am - 12:00 NoonRoom 2509 / 2510 Setnor8/29, 9/4, 9/11, 9/18, 9/25, 10/9, 10/16RESPONSIBLE CONDUCT OFSCIENTIFIC RESEARCH (RESEARCHETHICS) IIGS6191 creditCourse Coordinator:Dr. Robert OlickPeriod Offered:Fall SemesterPrerequisite: GS618 Responsible Conduct ofScientific Research (Research Ethics) ICourse Description: This course builds on GS618Responsible Conduct of Scientific Research (ResearchEthics) I, briefly revisiting core topics in the responsibleconduct of scientific research, and then covering additionaltopics, including: research fraud and misconduct,ethical views on animal use, and the pressures of scienceand how to succeed in science ethically.This course will utilize a case-based format, short didacticpresentations, panel presentations, and small groupin-class exercises, endeavors to help graduate students:• hone their moral reasoning skills in the contextof scientific research; and• apply their understanding of the professionalnorms of science to cases.Textbook(s):Macrina FL, Scientific Integrity: An Introductory Textwith Cases (3rd edition), 2005: Washington DC: AMSPress.Dates:Wed., 10:00am - 12:00 NoonCourse begins 10/23/13Room 2509 / 2510 Setnor12

GRADUATE STUDENT RESEARCHOPPORTUNITIESGS6040 Credit HoursInstructor(s):Members of theGraduate Faculty Organizationrepresenting the six Ph.D. training programs.Coordinator(s):Dr. Mark SchmittPrerequisite(s):Non-Matriculated studentsmust have prior permission from the lab mentorand the Dean of the College of Graduate Studies.Period Offered:FallCourse required for all first-year PhD graduate studentsCourse Description: With one full afternoon perprogram, each of the six Ph.D. training programs willdescribe its currently active research projects. Thisdescription will be presented in a format which theprogram’s faculty feels best displays all its researchactivities. Two major goals of these presentationsare to: 1) acquaint the incoming graduate studentswith the breadth of research being pursued withineach graduate program, and 2) to thereby give theincoming graduate students further informationupon which to base their own choice of researcharea for their dissertations.Textbook(s):NoneBIOMEDICAL SCIENCES LABORATORYROTATIONSGS6122 Credit Hours/rotationCoordinator(s):Graduate FacultyPrerequisite(s): Non-Matriculated students must haveprior permission from the lab mentor and theDean of the College of Graduate Studies.Period Offered: Fall/Spring/Summer semestersThis is a special research training program designedto acquaint students with areas of research and/orthe use of methods, techniques, and instrumentation.Course Description: Three different research laboratoryrotations taken consecutively are required forall first-year PhD students. Rotations begin approximatelyOctober 2, January 6, and March 24 (in threedifferent research laboratories). An optional fourthrotation in the summer may be taken. Written reportdue to Advisor at the end of each rotation [Studentsmay petition Advisory Committee to be exempt fromthe 3rd rotation, under very special circumstances].The grading for laboratory rotations is satisfactory/unsatisfactory.Textbook(s):NoneINTRODUCTION TO THE PRESENTATIONAND ANALYSIS OF SCIENTIFICLITERATURE: JOURNAL CLUB GS8921 Credit HourCoordinator(s): Dr. Peter Calvert, Course Directorand Biomedical Sciences FacultyPrerequisite(s):NonePeriod Offered:SpringRequired for all entering graduate students.Course Description: This course gives students theopportunity to read, critically evaluate, and presentresearch articles in a variety of fields. During thiscourse students are expected to develop a highstandard of scientific analysis and good public presentationskills. Students will be required to presentone to two paper(s) each semester depending ontime availability and to actively participate in classdiscussions when not presenting. This course isrequired for all first year graduate students in thespring semester, but, if space is available, it is alsooffered as an elective for advanced students.Students will be assigned to one of four groups. Weencourage students to begin selecting papers fortheir presentation before the first class.Textbook(s):None13

14Biochemistry And MolecularBiologyBIOCHEMISTRY & MOLECULARBIOLOGY LABORATORY ROTATIONS. . . . . . . . . . . . . . . . . . . . . . . B6092 Credit HoursPOST CORECURRICULUMCoordinator(s):Dr. Patricia Kaneand Biochemistry FacultyPrerequisite(s):NonePeriod Offered:Fall/SpringSee Course Instructor for dates, time and location.Course Description: This laboratory course isprimarily intended for Biochemistry graduatestudents. The course will provide instructionin laboratory techniques commonly used inbiochemical and molecular biological laboratoriesand will aid students in the selection of a researchadvisor. This course is offered year round. Researchareas covered span the interests of Biochemistry andMolecular Biology program faculty. The grading forlaboratory rotations is satisfactory/unsatisfactory.Textbook(s):NoneMETHODS OF BIOCHEMISTRY ANDMOLECULAR BIOLOGY RESEARCH. . . . . . . . . . . . . . . . . . . . . . . B617Variable CreditCoordinator(s):Dr. Patricia Kaneand Biochemistry FacultyPrerequisite(s):612GS Biomedical SciencesLaboratory Rotations or permission of InstructorPeriod Offered: Year Round, by ArrangementCourse Description: Course deals withindividualized laboratory experience. Topics agreedupon by student and faculty sponsor. Problemdesign and research methods are emphasized. Oftentaken between rotations and Thesis research to fulfillcredit requirements.BIOCHEMISTRY SEMINAR0 Credit HoursB620Coordinator(s):Dr. Xin Jie ChenPrerequisite(s):NonePeriod Offered:Fall/SpringCourse Description: Presentations of recentresearch activities by invited speakers.Mon., Rm. 2231, WH 12:00 PM - 1:00 PMTextbook(s):NoneINDEPENDENT STUDIES INBIOCHEMISTRY AND MOLECULARBIOLOGYB6381 – 3 Variable CreditCoordinator(s): Dr. Patricia Kane and BiochemistryFacultyPrerequisite(s): General Biochemistry or equivalentPeriod Offered:Fall/SpringSee Course Instructor for dates, time and location.Course Description: A tutorial course designed forgraduate students in biochemistry, or related disciplines,that will involve in-depth review of recentdevelopments in biochemical research. May include1) literature searches, 2) seminar and/or lectures, 3)hands on experience with new techniques availablein the department, and 4) a written report.The purpose of the course is to develop a broadknowledge of the biochemical literature as the studentadvances in his/her more defined research goals.Textbook(s):None

GENE EXPRESSION AND EPIGENETICREGULATIONB6473 Credit HoursCoordinator(s): Dr. Michael Cosgrove and Dr.Steven Hanes and Biochemistry and MolecularBiology FacultyPeriod Offered:Spring of even yearsCourse Description: Directed reading and studentdirected presentations on the primary literaturethat relates to gene expression from transcription tonuclear export. Maximum 12 students.RESEARCH DESIGN IN BIOCHEMISTRY &MOLECULAR BIOLOGYB6483 creditsPrerequisite: General biochemistry and molecularbiology or equivalent and permission of InstructorCoordinator(s):Dr. Xin Jie Chenand Biochemistry & Molecular Biology staffPeriod Offered:Fall/SpringDates, times and location to be arranged by instructorCourse Description: This course promotes thedevelopment of critical thinking and writingimportant to the students’ future career as scientists.The student will gain experience in designing anoriginal dissertation research project and preparingthe plan in a formal hypothesis-based researchproposal. Students will learn the essential features ofscientific writing, with the emphasis on developingskills necessary for effectively communicatingtheir research design. In the first part of the coursethe essentials of clear, unambiguous scientificwriting will be highlighted through examples andwritten exercises. The elements of good and badscientific writing will be discussed and comparedin a class setting. In the second part of the course,the important features of research design will becovered, implemented in the writing of a researchgrant-style proposal. The research proposal will bein the student’s area of interest, with help from theInstructor and experts in the field. Students willpublically present their final proposal in an overviewseminar to be arranged at the end of the course.Scheduling: The first month of the course willinitially consist of four 90-minute sessions of theentire class. Subsequent meetings will be on anindividual basis (by arrangement) for approximately1 hour every 2 weeks.Course objectives:(1) develop a cogent, hypothesis-based researchproposal that constitutes a “first draft” for theirthesis work as well as a proposal to be submitted forextramural funding.(2) give a clear, compelling oral presentation of theproposal and defend it.Grading: The course will use a satisfactory/unsatisfactory grading format. Grades will be basedon effort and improvement on the exercises andassignments.TOPICS IN QUANTITATIVE BIOLOGY. . . . . . . . . . . . . . . . . . . . . . . B6491 credit (2 hr sessions/every other week)Coordinator(s): Dr. Barry Knox & Dr. Peter CalvertPeriod Offered:Fall, even yearsCourse grading: Satisfactory / UnsatisfactoryClass Size:Limited to 12 studentsPart 1. Quantitative Biochemistry (Thermodynamics,physical biochemistry, enzyme kinetics, water).Part 2. Quantitative Cell Biology (Bioimaging,protein-protein interactions in living cells, diffusion).Part 3. Design Principles of Biological Circuits(Network basics, autoregulation, feed-forward loops,robustness, kinetics).This course is a seminar course on how, at a systemslevel, biological molecules interact and cells respondto their environment using quantitative approachesand analysis. Cross disciplinary techniques will beemphasized, to encourage students to think abouttraditional subjects in new ways. The focus will beon the description and use of models to explain howmolecules drive complex phenomenon essentialto cellular functions. The class will include lecture,presentation of original research articles and a finalpaper.15

SCIENTIFIC WRITING IN BIOCHEMISTRY. . . . . . . . . . . . . . . . . . . . . . . B6501 Credit HourCoordinator(s):Dr. Stewart Loh andBiochemistry and Molecular Biology FacultyPrerequisites:First year core curriculumPeriod Offered:FallCourse Description: This course is required inthe second year for all students performing theirthesis research in the Department of Biochemistryand Molecular Biology. The purpose of this courseis to provide practice and one-on-one instructionin scientific writing. Each week the student will beassigned a paper to read from the primary literatureby one of the program members, usually in thefaculty member’s area of expertise. The student willhave one week to read the paper and write a conciseone page summary and critique of the paper. Inthe second week, the student will revise the paper,with the direct guidance and final approval of thatfaculty member. This process will continue until eachstudent has completed a writing assignment from adesignated lis of members of the Biochemistry andMolecular Biology Graduate Program, participatingthat Fall.Grading:Satisfactory / UnsatisfactoryPROTEIN SORTING AND VESICULARTRAFFICKINGB6641 Credit HourCoordinator(s):Dr. Patricia KanePeriod Offered:Spring, Even YearsClass Size: Maximum of 14 studentsCourse Description: The current literature will beused to analyze recent discoveries and controversiesin protein sorting and trafficking. After an initialreview of core material related to the topic, studentswill be assigned papers to read in advance of eachclass along with questions to think about in relationto the reading assignment. Each class will then consistof a student presentation of the assigned paper(s) andclass discussion of the readings. Grading is based onpresentation and class participation.BIOENERGETICS2 Credit HoursB665Coordinator(s):Dr. Richard CrossPeriod Offered:Spring, Even YearsCourse Description: Using both lecture andstudent-driven discussions, carbohydrate metabolism,oxidative phosphorylation, membrane transportand the evolution of energy-transducing membranesystems will be covered.PROTEIN STRUCTURE DETERMINATION. . . . . . . . . . . . . . . . . . . . . . . B6662 Credit HoursCoordinator(s):Instructor(s):Period Offered:Dr. Stephan WilkensDrs. Stewart Loh, Edward Berry andStephan WilkensSpring, even yearsCourse Description: The primary literature willbe used to cover advanced topics in determinationof protein structure and dynamics. Topics includecharacterization of protein structure and dynamicsby X-ray crystallography, nuclear magnetic resonance,spectroscopy, cryo-electron microscopy, fluorescencespectroscopy, mass spectrometry, and computationalmethods. Emphasis is placed on how structure anddynamics of proteins relates to their function andmechanism.RESEARCH IN BIOCHEMISTRYVariable CreditB700Coordinator(s):Dr. Patricia Kaneand Biochemistry & Molecular Biology FacultyPrerequisite(s):NonePeriod Offered:Fall/SpringSee Advisor.Course Description: Original thesis research in thefield of Biochemistry under the supervision of amember of the staff.Textbook(s):None16

SB 3BIOLOGICAL AND MEDICAL PHYSICS(SU: PHY 615)B6113 Credit HoursCoordinator(s):Instructor(s):Prerequisite(s):Period offered:Dr. Stewart LohLiviu Movileanu;Office: 211 (SU Physics Bldg.)E-mail: lmovilea@physics.syr.edu;Phone: (315) 443-8078SB 3 student orapproval of course coordinator.Fall semesterCourse description: Biological and Medical Physics(PHY 615, 3 credits) is a one-semester graduate levelcourse intended for students from physical, chemicalandbiomedical sciences. The PhD students enrolledin Structural Biology, Biochemistry and BiophysicsProgram (SB 3 ), or those from Biotechnology and BiomedicalSciences Programs (SUNY-ESF, SU and UpstateMedical School) are very welcome. From the verybeginning, I have to mention that this is not a courseto teach either “biology for physicists” or “physics forbiologists and physicians”. The emphasis will be on aselected range of “hot topics” that lie at the interfacebetween physical, chemical and biomedical sciences.The primary aim is to have an overview of the fundamentalbiophysical research questions, as well asrecent experimental developments and techniquesthat engage a multidisciplinary effort. In addition, wewill discuss “applicative topics” of biological physics inseveral realms, including nanobiotechnology, biosensors,drug delivery, and medical imaging. Therefore,much of the content of PHY 615 will not be presentedin a traditional manner. Finally, from a practical pointof view, the Biological and Medical Physics course willestablish strategies for people with complementarybackgrounds who will be having the chance to workin multidisciplinary areas.MOLECULAR MODELING (SU: BCM684)B6543 Credit HoursCoordinator(s):Instructor(s):Prerequisite(s):Period Offered:Dr. Stewart LohDr. Tom Duncan (UMU),Dr. Phil Borer (SU),SB 3 student orapproval of course coordinator.Spring semester of odd yearsCourse Description: Enrollment: Limited to 15students. Students will become proficient inmolecular modeling by attending lectures andcompleting projects using available work stations.Topics covered include the following:1. Unix survival skills2. Download and modify protein data bank files3. Visualization and rendering4. Strategies for minimization and dynamics5. Energy and simulation temperature6. Kinetic analysis of a two-state jump7. Dynamics of an inhibitor bound to HIV- Iprotease8. Simulating statistical behavior of the alphahelix-coil transition9. Introduction to protein homology modeling10. Protein sequence analysis and alignment11. Classification and recognition of protein foldingmotifs12. Approaches to three-dimensional modeling ofproteins13. Evaluation and refinement of three-dimensionalmodels17

Cell and DevelopmentalBiologyGROSS ANATOMY9 Credit HoursA505Instructor(s):Dr. S. Stearns and staffPrerequisite(s):Matriculation in theCollege of Medicine and/or Graduate Studies orapproval of course directorPeriod Offered:Fall/SummerCourse Description: The study of anatomicalstructures and systems and their functions arestudied primarily through dissection supplementedwith comprehensive lectures aligned with dailylaboratory assignments. Pathological and agerelatedchanges in organs are observed and theresults of surgical procedures are discussed andcorrelated with disease processes. Pertinentdevelopmental anatomy is presented to enhanceunderstanding of normal adult structures andof common congenital defects. Radiographicimages presented in online case studies provideand opportunity to use anatomical knowledge in aclinical reasoning and problem-solving.Days and Times: TBAWeiskotten Hall Addition 9295 (Lecture),Weiskotten Hall 143 (Lab)Summer Semester - June - AugustMon. - Fri., 9:00 AM - 2:00 PM DailyTextbook(s):Essential Clinical Anatomy - 4th Edition, Keith Moore,MD , PhD & Ann Agur. Lippencott Williams andWilkens - PublisherLangman’s Medical Embryology - 12th Edition,TW Sandler, Lippencott Williams and Wilkens -PublisherNetter’s Atlas of Human Anatomy - 5th Edition,Arthur Dalley, PhD, Novartis - PublisherINTRODUCTION TO NEUROSCIENCE(SAME AS N507)A5073 Credit HoursCoordinator(s): Dr. Frank Middleton, Co-DirectorDr. Mary Lou Vallano, Co-DirectorDr. George Ring, Co-DirectorPrerequisite(s):Approval of course directorPeriod Offered:Spring or SummerCourse Description: The Systems Neurosciencecourse will consist of the Neuroscience coursegiven to first year medical students, without theneuroanatomy components.This course will include the study of systems ofneuroscience, including sensory, motor, limbicsystems, sleep and awakening, and basic congnitiveprocessing. The summer session will be acombination of video presentations and live tutorials.There will be 2 essay/multiple choice exams.MICROSCOPIC ANATOMY A5174 Credit HoursInstructor(s):Dr. T. J. Poole and StaffPrerequisite(s):NonePeriod Offered:SpringCourse Description: Development, structure, andfunctions of the primary tissues and organ systems.The various organ systems are analyzed for structuralarrangements; correlation of form and functionis emphasized at both the light microscope andultrastructural levels. Lecture and laboratory.Lecture - Weiskotten Hall Addition, Rm. 9295Labs - Weiskotten Hall Addition, 7th FloorTextbook(s):Upstate Medical UniversityMicroscopic Anatomy Syllabus18

GRADUATE CELLULAR ANATOMY2 creditsCourse Coordinator:Course Instructors:Period Offered:A613Dr. David PruyneDrs. David Pruyne, Ira Ames,Mira Krendel, Vladimir SirotkinFall Semester, odd yearsPrerequisite:College of Graduate Studies’ Core CurriculumClass Size:Limited to 12 students.Course Description: Graduate Cellular Anatomywill provide an opportunity for graduate studentsto independently visualize cells, tissues, and organsof the human body by direct light-microscopicobservation of prepared histologic specimens anddevelop their teaching and presentation skills.Course instructors will give introductory lectures onthe histology of the basic tissue types. Each lecturewill be followed by a guided laboratory sessionwhere each student will use their own universitymicroscope to explore these tissue types. Courseparticipants will select organ systems of interestand prepare presentations on the histology ofthose organ systems and present it to the class.Digital images taken from the class slide sets will beprovided to enhance student presentations. Studentpresentations will also be followed by a laboratorysession for students to explore that organ system.Students will use advance reading of a textbookand instructor guidance to aid in visualization ofhistologic specimens of the organ system of theday. Grading will be based on class participation,presentation, and a short paper detailing aspects ofcellular anatomy important to the student’s thesisresearch.Textbook:A combined text and color atlas of histology willbe required. Suitable examples include those byJunquiera, Ross, Wheater, or Kerr, available at thebookstore and on reserve in the library. A limitednumber of copies will be available for loan from thecourse instructors.Dates:Mon. 1:00-3:00pmLocation: 7 th Floor, WH, Lab #5CONTEMPORARY CELLULAR,MOLECULAR AND DEVELOPMENTALBIOLOGYA6143 Credit HoursInstructor(s):Dr. T. Poole and staffPrerequisite(s): A622 or Instructor PermissionMinimum of four students requiredPeriod Offered:Fall Semester, even yearsCourse Description: Lectures, student presentations,and discussions dealing with cellular and molecularmechanisms during embryonic development.Classical as well as contemporary concepts will beemphasized.Textbook(s):NoneSPECIAL TOPICS IN ANATOMICALSCIENCESVariable CreditA615Coordinator(s):Dr. J. W. Sangerand the Cell & Developmental Biology StaffPrerequisite(s): Approval of the departmentPeriod Offered:This course is offered byarrrangement only(615A1 - Teaching in Developmental and HumanAnatomy, Variable Credit, fall, Dr. S. Sterns andStaff)(615A2 - Teaching in Neuroscience, 3 credits, spring,Dr. G. Ring and Staff)(615A3 - Teaching in Histology, 3 credits, spring, Dr.T Poole and Staff)Course Description: Advanced work in anysubdiscipline of anatomical sciences such asdevelopmental biology, cellular biology and finestructure, gross anatomy, and neurosciences.This course is offered by arrangement, year round.Textbook(s):None19

Recognition by the T-Cell Receptor; Regulationof Immune Recognition in the Nervous System;Lymphocyte Activation Cascades; Immunotherapyfor Cancer; Viral Immunomodulation; ImmunologicalMemory; Cytokines in Rheumatoid Arthritis.Textbook(s): Cellular and Molecular Immunology,Abbas, et.al, 4th editionCURRENT CONCEPTS IN VIROLOGY. . . . . . . . . . . . . . . . . . . . . . M6163 Credit HoursCoordinator(s):Drs. Charles Hwangand Microbiology & Immunology FacultyPrerequisite(s):Microbiology and Cell andMolecular BiologyPeriod Offered: Second half of Spring semesterCourse Description: The structure, function andreplication of important virus groups will be studied.Current research topics and techniques will bereviewed, with an emphasis on molecular biologyand viral pathogenesis. Time, day and location TBA.Textbook(s):Selected Papers and TBADIRECTED INDIVIDUAL STUDYIN MICROBIOLOGICAL ANDIMMUNOLOGICAL RESEARCHMETHODSVariable CreditM623Coordinator(s):Dr. Jennifer MoffatMicrobiology & Immunology FacultyPrerequisite(s): The course is limited to studentsstudying for a degree in Microbiology andImmunology, or to others by special arrangementwith the Department Graduate Program Director.Period Offered: This course is offered Fall/Springby arrrangementCourse Description: This is a special researchtraining program designed to acquaint studentswith specific areas of research and/or use ofmethods, techniques, or instrumentation, as well asto introduce students intensively to the laboratory,and research approaches.Textbook(s):NoneSEMINAR AND JOURNAL CLUB INMICROBIOLOGY AND IMMUNOLOGY. . . . . . . . . . . . . . . . . . . . . . M6242 Credit HoursCoordinator(s):Dr. Michael Princiottaand Microbiology/Immunology FacultyPrerequisite(s): Past or current Microbiology andImmunology course, or bypermission of course coordinatorPeriod Offered:Fall/SpringCourse Description: Faculty and students willpresent their research work, or lead a Journal Clubdiscussion in a selected subject area. Meetings willbe twice weekly lasting 60 minutes per session.Grading will be based upon participation and oralcontributions to discussion, as well as individualpresentations.Textbook(s):NoneMETHODS OF MICROBIOLOGY ANDIMMUNOLOGY RESEARCH M626Variable CreditCoordinator(s):Dr. Jennifer MoffatMicrobiology & Immunology FacultyPrerequisite(s):GS612 Biomedical SciencesLaboratory Rotations,or by permission of course coordinatorPeriod Offered:Year round by arrangementCourse Description: Methods of Research used bythe faculty are demonstrated. Problem design andresearch methods are emphasized. Course deals withindividualized laboratory experience. Topics agreedupon by student and faculty sponsor.INTRODUCTION TO VIROLOGY2 Credit HoursM627Coordinator(s):Dr. Jennifer Moffatand Microbiology & Immunology FacultyPrerequisite(s): Course work in Biochemistryand Molecular BiologyPeriod offered: Second half of spring semesterCourse Description: This is an introductory coursein virology for graduate students. The objectives areto understand the structure and characteristics ofviruses, their replication, interactions with the host,and applications in biomedical science. The material21

will be presented as lectures and in discussion ofprimary research articles.Textbook(s): Principles of Virology: Molecular Biology,Pathogenesis, and Control. 3rd Ed.,S.J. Flint, et al, 2008,ASM Press.Location:Room 3109 Weiskotten HallINTRODUCTION TO IMMUNOLOGY. . . . . . . . . . . . . . . . . . . . . . M6282 Credit HoursCoordinator(s):Dr. Steve Taffetand Microbiology & Immunology FacultyPrerequisite(s): Course work in Biochemistryand Molecular BiologyPeriod offered:First half of spring semesterCourse Description: This course is intended to bean introductory course in immunology for graduatestudents. The course goal is to develop a generalunderstanding of immunology including bothadaptive and innate immunity. Sixteen lectures willpresent basic concepts in immunology. In additionthere will be fourteen sessions in which a journalarticle will be discussed which relates to the topic ofthe preceding lecture.Grades: Eighty percent of the grade will bedetermined by the average score of three examsand twenty percent of grade will be determined byclass participation in discussion of journal articles.Textbook(s): Immunobiology, Vol 7 by CharlesA. Janeway, Paul Travers, Mark Walport, and MarkShlomchikLocation:Room 3113 Weiskotten HallRESEARCH IN MICROBIOLOGYVariable CreditM700Coordinator(s):Dr. Jennifer Moffat,Microbiology & Immunology Staff& Adjunct FacultyPrerequisite(s):NonePeriod Offered:Fall/SpringCourse Description: Original research inmicrobiology for the master’s thesis or doctoraldissertation.Textbook(s):NoneM.D. and Ph.D. CoursesRESEARCH DESIGN FOR PHYSICIAN-SCIENTISTS MDPH 6013 Credit HoursCoordinator(s):Dr. Steven YoungentobPrerequisite:MD/PhD students in MSII yearPeriod offered:FallCourse description: This course promotes thedevelopment of critical scientific writing importantto the students’ future career as physician-scientists.The student will gain experience in grantsmanshipby writing and presenting an original hypothesisbasedresearch proposal. Students will learn theessential features of scientific writing, with theemphasis on developing skills necessary for craftingan effective grant proposal. In the first part of thecourse the essentials of clear, unambiguous scientificwriting will be highlighted through examples andwritten exercises. The elements of good and badscientific writing will be discussed and compared.In the second part of the course the importantfeatures of writing a grant proposal will be reviewed.Students will write a grant proposal in their area ofinterest, with help from the Instructors and theirthesis advisors [if chosen]. Attention to incorporatingthe aspects of clinical training and the translationalaspects of the research proposal will be emphasized.Proposals will follow the typical NIH proposal formatfor MD/PhD pre-doctoral fellowships. Students willread and review each other’s proposals, thus gainingexperience in the art of reviewing.Scheduling: The first month of the course willinitially consist of three 90-minute sessions of theentire class. Subsequent meetings will be on anindividual basis (by arrangement) for approximately1 hour every 2 weeks.Course objectives:(1) develop a cogent, hypothesis-based researchproposal that constitutes a “first draft” fortheir thesis work as well as a proposal to besubmitted for extramural funding.(2) give a clear, compelling oral presentation of theproposal and defend it.Grading: The course will use a satisfactory/unsatisfactory grading format. Grades will be basedon effort and improvement on the exercises andassignments.22

NeuroscienceINTRODUCTION TO NEUROSCIENCE(SAME AS A507)N5073 Credit HoursCoordinator(s): Dr. F. Middleton, Co-DirectorDr. Mary Lou Vallano, Co-DirectorDr. G. Ring, Co-DirectorPeriod Offered:Spring or summerCourse Description: The Systems Neurosciencecourse will consist of the Neuroscience coursegiven to first year medical students, without theneuroanatomy components.This course will include the study of systems ofneuroscience, including sensory, motor, limbicsystems, sleep and awakening, and basic cognitiveprocessing. The summer session will be a combinationof video presentations and live tutorials. There willbe 2 essay/multiple choice exams.NEUROSCIENCE3 Credit HoursN601Coordinator(s): Dr. rick Matthews & NeuroscienceProgram FacultyPeriod Offered:Spring, contingent on theavailability of N507Course Description: Detailed anaylsis of theanatomy, physiology and chemistry of the nervoussystem and behaviors that it mediates. Topicsinclude: neurons and electrochemical properties ofneurons, sensory and motor systems, homeostasis,sleep consciousness, learning and memory.Textbook(s):To be determinedCELL PHYSIOLOGY OF EXCITABLECELLSPHA602, N602, PHY6022 Credit HoursCoordinator(s):Dr. Richard Veenstra, Director(Pharmacology)Prerequisites: Foundations of Biomedical SciencesCore CurriculumPeriod Offered:Spring, March-JuneMust have 3 or more graduate students registeredto offer course.Course Description: This course will present anddiscuss key concepts of ion channel function andhow they relate to the cell physiology of excitablecells. The Instructor(s) will present Discussion topicson Reviews of Electricity and Action Potentials,the Hodgkin-Huxley model for the nerve actionpotential, theories for electrodiffusion and ionpermeation, and visual transduction. The remainderof the course will be primarily student led discussionsof selected chapters from the Cell PhysiologySourcebook covering concepts of Ion ChannelStructure, Fuction, Regulation, and Channelopaties(human diseases caused by ion channel dysfunction),with the guidance of the Instructors. There willbe approximately 14 to 16 student led discussions(3-5 per student) and 6-7 lectures presented bythe Instructors. Grades are based on studentattendance, presentation, and participation in thein-class discussions. There is no course examination,although take-home problems may be assignedto increase student participation. A minimum of 3matriculated graduate students must register for thiscourse to be offered.Textbook(s):Cell Physiology Sourcebook:Essentials of Membrane Biophysics (4th Edition 2012),N. SperelakisTOPICS IN DEVELOPMENTALNEUROBIOLOGY2 Credit HoursN610Coordinator(s):Dr. Rick Matthewsand other Neuroscience FacultyPrerequisite(s): N601 Neuroscience (completed orcurrently enrolled) or by arrangement with facultyPeriod Offered:Spring, even years(Session II: March-June)Course Description: This course is a half semestercourse, eight weeks in length, and will run in thesecond half of the spring semester, even years. Twotwo-hour sessions will be scheduled per week. Thisis primarily a reading course. Students will meetwith the faculty twice per week to discuss questionsor issues presented by the student. There will be awritten exam at the end of the course.This course will provide extensive, yet selective,exposure to major issues and events in thedevelopment of the nervous system. Topicsinclude: Axis determination and early patterning,Developmental signals and gene regulation,23

Cell generation/proliferation, Cell migration andguidance, Cell death, Synaptogenesis, and Plasticity.TOPICS IN VISION I . . . . . . . . . . N6162 Credit HoursCoordinator(s):Dr. Eduardo SolessioPrerequisite(s): Introductory (e.g., undergraduate)neuroscience and N623 Systems Neuroscience isstrongly encouraged.Period Offered: Late Spring of odd numberedyears; By arrangement onlyCourse Description: The course will examineneuroanatomical, electrophysiological, andpsychophysical aspects of vision. This is primarily areadings course, with emphasis on original literature.It is particularly appropriate for graduate studentsintending to conduct original research in the visualsystem. This first half will focus on visual mechanismsat the level of the retina, and will be offered on oddnumbered years.Course Format: The course will largely consist ofdiscussion sessions covering extensive readings oforiginal scientific literature. Grades will be based onclass participation.METHODS OF NEUROSCIENCERESEARCH2 Credit HoursCoordinator(s):Prerequisite(s):Period Offered:N617Dr. Barry Knoxand Neuroscience FacultyGS616 Foundations CourseSpring 1-10 weeks(ends before N507 in Spring 2)Course Description: Survey of research methodsin NS. Course will include modules on the studyof gene expression, morphology of neurons andglia cells, neuronal and glial function, behavior,networks, inheritance, etc. Emphasis is onexperimental design, research protocols and datainterpretations. Most modules will include bothstudy of theory and actual hands-on practicethrough in-lab demonstrations of researchmethods.Textbook(s):NoneTOPICS IN VISION II2 Credit HoursN618Coordinator(s):Dr. Daniel Ts’o (Director)and Dr. Brad MotterPrerequisite(s): Introductory (e.g., undergraduate)neuroscience and N623 Systems Neuroscienceis strongly encouraged.Period Offered: Spring; By arrangement onlyCourse Description: The course will examineneuroanatomical, electrophysiological, andpsychophysical aspects of vision. This is primarily areadings course, with emphasis on original literature.It is particularly appropriate for graduate studentsintending to conduct original research in thevisual system. This second half will focus on visualmechanisms beyond the level of the retina, focusingon the cortical contributions to visual processing andvisually-guided behavior.Course Format: The course will largely consist ofdiscussion sessions covering extensive readings oforiginal scientific literature. Grades will be based onclass participation.NEUROBIOLOGY OF DISEASE2 Credit HoursN619Course Director:Dr. Eric OlsonCoordinator(s):Basic Science andClinical Departments FacultyPrerequisite(s): GS616 Foundations of Molecular &Cellular Biology or permission of instructorPeriod Offered:Fall, odd yearsFirst halfCourse Description: Neurobiology of Disease willmeet twice per week, Mondays and Fridays, 2:00– 4:00 P.M. Each meeting will focus on one diseasewhere some of the molecular underpinnings areunderstood (e.g. Alzheimer’s Disease). The firsthour of class will be led by a research scientistor physician with expertise in the basic biologyof the disease. The class will discuss one reviewarticle and important research papers on themolecular mechanism of the disease. The secondhour of class will be conducted by a clinician andthe students will be introduced to the clinicaldimensions of the disease.Textbook(s):None24

ADVANCED TOPICS IN RECEPTORS ANDCELL SIGNALING (SAME AS PHY620) N6201 Credit HourCoordinator(s):Dr. Brian HowellPrerequisite(s):First year core curriculum;although not required, AutonomicPharmacology 619PHA is strongly recommended.Period Offered:FallCourse Description: This advanced course will covera topic in receptors and cell signaling; for example,G-protein-coupled receptors, integrins and celladhesion, glutamate receptor signaling and LTP,CDKs with emphasis on the neural-specitlc CDK5,ras signaling and tyrosine kinase-linked receptors,scaffolding proteins, Topics will be covered by acombination of graduate student-specific lecturesand tutorials, based on current research papersand associated reviews. Each topic will also includea take-home essay-type examination. Althoughit is not required, it is highly recommended thatthis course be taken in sequence with 619PHA-Autonomic Pharmacology. A minimum of 2 studentsmust register for this course to be offered.Textbook(s): None - selected readings will beassignedNEUROANATOMY LAB (SAME AS A621). . . . . . . . . . . . . . . . . . . . . . N6212 Credit HoursCoordinator(s):Prerequisite(s):Period Offered:Dr. George RingN507/A507 or N601 orby permission of instructorSpringCourse Description: Using a case-based format,this course will provide students an appreciation forthe structure and three-dimensional organizationof the central nervous system including externaland internal anatomy of the central nervous system,functional organization and interconnections of themajor brain pathways.Textbook(s): Haines (Neuroanatomy: An Atlas ofStructures, Sections, and Systems; 8th ed.)Textbook(s):None.SYSTEMS NEUROSCIENCE2 Credit HoursN623Coordinator(s):Dr. Daniel Ts’oInstructor(s):Neuroscience FacultyPeriod Offered:FallCourse Description: An exploration of issues andthemes in systems neuroscience, focusing on thecooperativity of neurons in circuits, ensembles,representations and pathways, leading to sensation,perception, information processing, cognition andbehavior. Course format includes lectures anddiscussion. Readings include selected textbookchapters and reviews as well as in-depth analysis oforiginal literature. This is an introductory graduatelevel course that does not assume prior exposureto systems neuroscience beyond the level of N507.Textbook(s):None.GRANT WRITING COURSE INNEUROSCIENCE & PHYSIOLOGY(SAME AS PHY627)3 Credit HoursN627Coordinator(s): Dr. Barry Knox and faculty mentorsPeriod Offered:Both Fall and SpringPrerequisites: Core curriculum courses and N601/Neuroscience or permission of instructors.Course Description: The primary goal of thecourse is to teach grant writing and critical thinkingskills using the current NIH format for predoctoralfellowships. The course is divided into 3 sections:a brief series of informational lectures about theNIH peer-review process and application materials.Emphasis will be placed on the research proposalsection, though all aspects of the application willbe discussed in this series of lectures. In section2, students will develop their specific aims pagethrough a series of one-on-one interactive meetingswith the course coordinators. In section 3, studentswill work closely with the course coordinators aswell as their mentors to develop the main body ofthe proposal based on their specific area of study.Sections 2 and 3 will be the most time consuming.It is anticipated that the finalized application willbe submitted to the NIH for funding consideration.Grading: Satisfactory/Unsatisfactory25

NEUROBIOLOGY OF ADDICTION (SUNYBINGHAMTON COURSE #PSYC 576-01) N6282 Credit HoursSUNY Upstate Medical Course Coordinator:Dr. Steven YoungentobPeriod Offered:SpringCourse Description: Overview of the neuroanatomyand molecular neurobiology underlying addiction.Students will interactively learn and discuss theneurobiological basis of many drugs of abuse andaddictive behavior.SCIENTIFIC WRITING INNEUROSCIENCE1 Credit Hour26N629Coordinator(s):Dr. J. FreedmanPrerequisites:First year core curriculumPeriod Offered:FallCourse Description: This course is required in thesecond year for all students performing their thesisresearch in the Neuroscience Program. The goal ofthe course is to develop writing skills, by providingpractice and one-on-one instruction in scientificwriting.There will be formal class meetings with theinstructor for 90 minutes each week for the firstpart of the course (4 meetings). The student willread from the primary literature and write a concisesummaries and critiques of the papers. Student willrevise the paper, with the direct guidance and finalapproval of the faculty member.Grading: Satisfactory / UnsatisfactoryTOPICS IN NEUROSCIENCE1 Credit HourN631Coordinator(s):Dr. Pignoni and NS FacultyPrerequisite(s): none, for first year incoming studentsonlyPeriod Offered:Fall II - 8 weeksCourse Description: A survey course of currentresearch in neuroscience. Members of theNeuroscience Faculty will present specific subfieldsof NS research focusing on major questions andrecent progress. All NS faculty will take turnsparticipating in this course; 8 faculty mambersor more per year. Course will combine a basicintroductory lecture (focused on major questionsand techniques) with a discussion sessions togo over a recent research paper. Students willbe required to submit written questions for, andactively participate in, the discussion session. Thepurpose of the course is to familiarize incomingstudents with major research questions andexperimental approaches in NS research.Textbook(s):None.INDEPENDENT STUDY INNEUROSCIENCE1-3 variable Credit HoursN630Coordinator(s): Dr. Pignoni and Neuroscience FacultyPrerequisite(s):N507Period Offered:By arrangementCourse Description: A tutorial coursedesigned for graduate students in neurosciencethat provides an in-depth look at a field ofneuroscience research. Course will include: 1.)Literature survey, 2.) seminar and/or lectures, 3.)in-depth critique of literature and/or expermentaltechniques. Fulfillment of the course requiresa written report. The purpose of the course isto develop in-depth knowledge of a field of NSresearch as a student continues to make progresstowards his/her research goals.Textbook(s):None.TOPICS IN CELLULAR ANDMOLECULAR NEUROBIOLOGY2 Credit HoursN653Coordinator(s): Dr. Brian Howell, NeurosciencePrerequisite(s): Core Curriculum and N603 (orequivalent) or by arrangement with faculty.Period Offered:by arrangementCourse Description: This course will discuss majorissues in Molecular and Cellular Neurobiology,emphasizing contemporary approaches.Textbook(s):To be announced.RESEARCH ROTATIONS INNEUROSCIENCE1-5 Credit HoursN675Coordinator(s):Dr. Barry Knoxand Neuroscience facultyPrerequisite(s): Approval of the NeuroscienceProgram and involved faculty members

Period Offered: Offered year round by arrrangementCourse Description: Methods of research used bythe faculty are demonstrated. Problem design andresearch methods emphasized.Course deals with individualized laboratoryexperience. Topics agreed upon by student andfaculty sponsor.Textbook(s):NoneRESEARCH IN NEUROSCIENCEVariable CreditN700Coordinator(s):Dr. Barry Knoxand Neuroscience facultyPrerequisite(s):NonePeriod Offered:Fall/SpringCourse Description: Original dissertation researchin Neuroscience under supervision of a Neurosciencefaculty member and monitored by an advisorycommittee.Textbook(s):NonePHARMACOLOGY7 Credit Hours*Coordinator(s):Prerequisite(s):Period Offered:PharmacologyPHA540Drs. S. Grassl, J. SteinCore Curriculum andMedical PhysiologyFall (Aug-May)Course Description: This course emphasizes thebasic principles of drug action as related to moderntherapeutics. The course is organized in six unitsbased upon organ systems and aligned with similarsubject matter taught in other second year courses inthe medical student curriculum. Each unit includesrelevant lectures, a problem solving session, and aclinical case presentation. The role of the faculty isto support students in learning pharmacology and ingaining a foundation upon which to build a rationalapproach to the use of drugs in clinical practice.Textbook(s): Recommended: Goodman andGilman’s, The Pharmacological Basis Of TherapeuticsCELL PHYSIOLOGY OF EXCITABLE CELLS(SAME AS N602 & PHY602) PHA6022 Credit HoursInstructor(s):Dr. Richard Veenstra, Director(Pharmacology)Prerequisite(s): Foundations of Biolmedical SciencesCore CurriculumPeriod Offered:Spring, March-JuneMust have 3 or more graduatestudents registered to offer courseCourse Description: This course will present anddiscuss key concepts of ion channel function andhow they relate to the cell physiology of excitablecells. The Instructor(s) will present Discussiontopics on Reviews of Electricity and ActionPotentials, the Hodgkin-Huxley model for thenerve action potential, theories for electrodiffusionand ion permeation, and visual transduction. Theremainder of the course will be primarialy studentled discussions of selected chapters from the CellPhysiology Sourcebook covering concepts ofIon Channel Structure, Function, Regulation, andChannelopaties (human diseases caused by ionchannel dysfunction), with the guidance of theInstructors. There will be approximately 14 to 16student led discussions (3-5 per student) and 6-7lectures presented by the Instructors. Grades arebased on student attendance, presentation, andparticipation in the in-class discussions. Thereis no course examination, although take-homeproblems may be assigned to increase studentparticipation. A minimum of 3 matriculatedgraduate students must register for this course tobe offered.Textbook(s): N. Sperelakis, Cell PhysiologySourcebook: Essentials of Membrane Biophysics, 4 thEdition, 2012PRINCIPLES OF PHARMACOLOGY. . . . . . . . . . . . . . . . . . . . . PHA6101 Credit HourCoordinator(s):Dr. Richard VeenstraPrerequisite(s):First year Core CurriculumPeriod Offered:FallThis course begins with the start of the Collegeof Medicine academic year, which is August 12,2013.27

Course Description: This advanced course willcover and analyze the fundamental principles ofPharmacology at the cellular and molecular levels.Topics covered will be kinetics of drug distributionand elimination, as well as agonism, antagonism,co-operativity and desensitization. It will consist ofa combination of graduate student-specific lecturesand tutorials together with selected lectures fromthe Medical School Pharmacology course (540PHA).The course may be taken in conjunction withother Pharmacology modules. A minimum of twostudents must register for this course to be offered.Examinations will be in essay format.Textbook(s): None - selected readings will beassignedCARDIOVASCULAR PHYSIOLOGY ANDPHARMACOLOGYPHA6121 Credit HourCoordinator(s):Dr. A. PertsovPrerequisite(s):First year Core CurriculumPeriod Offered:Spring, FallCourse Description: This advanced course will detailand analyze current knowledge in cardiovascularanatomy, physiology, and pharmacology. Topicscovered will be the molecular, cellular andelectrophysiological bases of cardiovascular function,and the cellular and molecular mechanisms of drugsused to treat hypertension, myocardial ischemia,heart failure and complex cardiac arrhythmias.This course is designed as a self-studywith weeklymoderated discussion sessions to monitor progress.A minimum of two students must register for thiscourse to be offered.Textbook(s): None - selected readings will beassignedAPOPTOSIS AND CANCERPHARMACOLOGY2 Credit Hour28PHA615Coordinator(s): Drs. M.S. Sheikh and Y. HuangPrerequisite(s):First year Core CurriculumPeriod Offered:SpringCourse Description: This advanced course willcover current concepts in cell death and cancerpharmacology, and will specifically address themolecular actions of anticancer agents with emphasison death ligands/receptors, apoptotic machinery,tumor suppressor genes, oncogenes, molecularmechanisms of chemoprevention and anti-cancerdrug resistance, novel anticancer drug targets andemerging anticancer therapies. It will consist of acombination of graduate student-specific lecturesand tutorials.Textbook(s): None - selected readings will beassignedLocation:Room 3113 Weiskotten HallMETHODS OF PHARMACOLOGYRESEARCHPHA617Variable CreditCoordinator(s):Dr. Y. HuangPharmacology FacultyPrerequisite(s):GS612 Biomedical SciencesLaboratory Rotations or permission of InstructorPeriod Offered: Year round by arrrangement onlyCourse Description: Methods of research usedby faculty are demonstrated. Problem design andresearch methods are emphasized.Outline: Course deals with individualized laboratoryexperience. Topics agreed upon by student andfaculty sponsor.Textbook(s):NoneCURRENT TOPICS IN PHARMACOLOGY. . . . . . . . . . . . . . . . . . . . . PHA6181 Credit HourCoordinator(s):Dr. Y. HuangPharmacology FacultyPrerequisite(s):610PHAPeriod Offered: Year round by arrrangement onlyCourse Description: The purpose of this tutorialcourse is to develop a student’s knowledge ofPharmacologic research as well as to provide anopportunity for focussed study in areas of cell andmolecular pharmacology not otherwise covered inthe graduate curriculum. The course format mayinclude selected readings, discussions with faculty,seminars, and lectures. Course content should bediscussed with the acuity mentor prior to enrollmentin the class. Examination will be in the form of awritten essay or public seminar, as determined bythe course faculty.

AUTONOMIC PHARMACOLOGY. . . . . . . . . . . . . . . . . . . . . PHA6191 Credit HourCoordinator(s):Dr. WojcikiewiczPrerequisite(s):First year core curriculumPeriod Offered:FallCourse Description: This course covers the essentialfeatures of the autonomic nervous system inhumans, and agents that modify this system,including therapeutic and recreational drugs andtoxic agents. The course will be composed of acombination of graduate student-specific lecturesand tutorials together with selected lectures fromthe Medical School Pharmacology course (540PHA).Textbook(s): Goodman and Gilman’s, ThePharmacological Basis of TherapeuticsPRINCIPLES AND PRACTICES OF DRUGDISCOVERY AND DEVELOPMENT. . . . . . . . . . . . . . . . . . . . . PHA622Total Credit: 1 (2 Hr sessions/every other week)Coordinator(s):Hong LuJuntao LuoInstructor(s): Hong Lu, Juntao Luo, Ziwei Huang,Debasdhis Ghosh, Jing An, and Golam MohiPrerequisite(s): Undergraduate (senior level) biologyand chemistry, or permission of the Instructor.Period Offered:Fall SemesterCourse Description: In the U.S. and aroundthe world, there is increasing effort by theNIH and other federal and private fundingagencies to promote the translation of novellaboratory research discoveries into medical andcommercial applications and demand from thebiopharmaceutical industry for new therapeutictechnologies and products from the academiadue to the downsizing and outsourcing of drugdiscovery and development programs in largepharmaceutical companies. Additionally, anincreasing portion of graduate students in thepharmacology program will end with working inpharmaceutical industries. Thus, it is importantfor pharmacology students to understand theprinciples and practices of drug discovery anddevelopment, for both current thesis work andfuture career development. This new course willbe a 1-credit elective course for pharmaologystudents and any graduate student who isinterested in drug discovery and development.It will cover the key principles and practices ofdrug discovery and development. Topics willinclude introduction and overview of academicdrug discovery and development at Upstate,structure-based drug design, combinatorialchemistry and high throughput screening in drugdiscovery, in vitro drug screening - identificationand optimization of lead compound, mousemodels for drug development, early safety andefficacy assessments, pharmacokinetics/toxicology(PK/TOX) studies in drug development, andnanotechnology in drug delivery.Course Objectives: Students will havecomprehensive understanding of the generalprinciples and practices in drug discovery anddevelopment. through this course, faculty from theDepartment of Pharmacology will deliver lecturesto provide students with an understanding of theprocess of drug development from the identificationof novel targets to the structural-based drugdesign, from the combinatorial chemistry andhigh-throughput drug screening for hit compoundidentification and lead optimization; from themolecular and cellular assays to the in vivo animalmodels for drug evaluation; from the PK/TOXstudy to drug molecules in the preclinical studies.Students will be expected to think critically aboutthe objectives and experimental designs of thevarious stages of drug development. Students willbe required to read literatures on each topic andwrite assays to summarize the development andperspectives on each stage of drug development.PHARMACOLOGY SEMINAR0 Credit HoursPHA645Coordinator(s):Dr. Y. HuangPharmacology FacultyPrerequisite(s):NonePeriod Offered:Fall/SpringCourse Description: Graduate students and facultywill meet every week during the academic yearto participate in seminars. Seminars will be givenby outside speakers and Departmental members,including Graduate Students who, after their firstyear, will be required to give one presentation peryear. Grades will be assigned based on performance.Thurs., 12:00 - 1:00 PM Room 3105 Weiskotten HallTextbook(s):None29

PHARMACOLOGY LABORATORYROTATIONSPHA653Variable CreditCoordinator(s):Dr. Y. HuangPharmacology FacultyPrerequisite(s): Course is limited to studentsstudying for a degree in Pharmacology, or byspecial arrangement.Period Offered: Fall/Spring by arrrangementCourse Description: Students learn methods ofresearch used by the Pharmacology Faculty. Problemdesign, research methods and the preparation of awritten report are emphasized.This course is not offered for thesis or dissertationresearch, which is course 700PHA.Textbook(s):NoneRESEARCH IN PHARMACOLOGY. . . . . . . . . . . . . . . . . . . . . PHA700Variable CreditCoordinator(s):Dr. Y. HuangPharmacology FacultyPrerequisite(s): Approval of the departmentPeriod Offered:Fall/SpringCourse Description: Original dissertation researchin Pharmacology under the supervision of aPharmacology Faculty member and monitored byan advisory committee.Textbook(s):NonePhysiology ProgramCELL PHYSIOLOGY OF EXCITABLE CELLS(SAME AS N602 & PHA602) PHY6022 Credit HoursCoordinator(s): Dr. Richard Veenstra, Director(Pharmacology)Prerequisite(s): Foundations of Biolmedical SciencesCore CurriculumPeriod Offered:Spring March-JuneMust have 3 or more graduatestudents registered to offer courseCourse Description: This course will present anddiscuss key concepts of ion vhannel function andhow they relate to the cell physiology of excitablecells. The Instructor(s) will present Discussiontopics on Reviews of Electricity and Action30Potentials, the Hodgkin-Huxley model for thenerve action potential, theories for electrodiffusionand ion permeation, and visual transduction. Theremainder of the course will be primarily studentled discussions of selected chapters from the CellPhysiology Sourcebook covering concepts ofIon Channel Structure, Function, Regulation, andChannelopaties (human diseases caused by ionchannel dysfunction), with the guidance of theInstructors. There will be approximately 14 to 16student led discussions (3-5 per student) and 6-7lectures presented by the Instructors. Grades arebased on student attendance, presentation, andparticipation in the in-class discussions. Thereis no course examination, although take-homeproblems may be assigned to increase studentparticipation. A minimum of 3 matriculatedgraduate students must register for this course tobe offered.Textbook(s): N. Sperelakis, Cell PhysiologySourcebook: Essentials of Membrane Biophysics, 4 thEdition, 2012BIOMATERIALS AND MEDICAL DEVICES(SU COURSE BEN468/668) PHY6032 Credit HoursCoordinator(s):Dr. Barry KnoxInstructor(s):Physiology FacultyPeriod Offered:SpringCourse Description: This course is designed tobe an introduction to the field of biomaterials andmedical devices. The basic material science ofmetals, ceramics, polymers, and biological materialsused in medical applications will be presented.Major concepts will focus on structure-propertyrelationships and the physical and mechanicalproperties of these important classes of materials.Textbook(s): None - selected readings will beassigned.

METHODS OF PHYSIOLOGY RESEARCH. . . . . . . . . . . . . . . . . . . . . PHY617Variable CreditCoordinator(s):Dr. Barry Knoxand Physiology FacultyPrerequisite(s):612GS Biomedical SciencesLaboratory Rotations or permission of InstructorPeriod Offered: Year round by arrrangement onlyCourse Description: Methods of research usedby the faculty are demonstrated. Problem designandresearch methods are emphasized. Course dealswith individualized laboratory experience. Topicsagreed upon by student and faculty sponsor.Textbook(s):NoneADVANCED TOPICS IN RECEPTORS ANDCELL SIGNALING (SAME AS N620). . . . . . . . . . . . . . . . . . . . . PHY6201 Credit HourCoordinator(s):Dr. Brian HowellPrerequisite(s):First year core curriculum;although not required, Autonomic Pharmacology619PHA is strongly recommended.Period Offered:FallCourse Description: This advanced course willcover a topic in receptors and cell signaling; forexample, G-protein-coupled receptors, integrinsand cell adhesion, neuromuscular junction and AChreceptors, glutamate receptor signaling and LTP,CDKs with emphasis on the neural-specitlc CDK5,ras signaling and tyrosine kinase-linked receptors,scaffolding proteins, Topics will be covered by acombination of graduate student-specific lecturesand tutorials, based on current research papers andassociated reviews. Each topic will also include atake-home essay-type examination.Although it is notrequired, it is highly recommended that this coursebe taken in sequence with 619PHA-AutonomicPharmacology. A minimum of 2 students mustregister for this course to be offered.Textbook(s): None - selected readings will beassignedGRANT WRITING COURSE INNEUROSCIENCE & PHYSIOLOGY (SAME ASN627) PHY6273 Credit HoursCoordinator(s): Dr. Barry Knox and faculty mentorsPeriod Offered:Both Fall and SpringPrerequisites: Core curriculum courses and N601/Neuroscience or permission of instructors.Course Description: The primary goal of thecourse is to teach grant writing and critical thinkingskills using the current NIH format for predoctoralfellowships. The course is divided into 3 sections:a brief series of informational lectures about theNIH peer-review process and application materials.Emphasis will be placed on the research proposalsection, though all aspects of the application willbe discussed in this series of lectures. In section2, students will develop their specific aims pagethrough a series of one-on-one interactive meetingswith the course coordinators. In section 3, studentswill work closely with the course coordinators aswell as their mentors to develop the main body ofthe proposal based on their specific area of study.Sections 2 and 3 will be the most time consuming.It is anticipated that the finalized application will besubmitted to the NIH for funding consideration.Grading: Satisfactory/UnsatisfactoryJOURNAL CLUB IN PHYSIOLOGY. . . . . . . . . . . . . . . . . . . . . PHY6521 Credit HourCoordinator(s):Dr. R. Matthewsand Physiology FacultyPrerequisite(s):Systems Physiologytaken either previously or concurrentlyPeriod Offered:by arrangementCourse Description: This course is designed tobe taken concurrently with Systems Physiology,although it could also be taken one year later. Itconsists of six sessions, each lasting approximatelytwo hours. Students will present and discussassigned journal articles dealing with topics currentlybeing discussed in the lecture course in SystemsPhysiology. Sessions will cover cardiovascularphysiology (2), respiratory physiology (1), renalphysiology (1), gastrointestinal physiology (1) andendocrine physiology (1).Textbook(s): Assigned journal articles31

SYSTEMS PHYSIOLOGY6 Credit HoursPHY657Coordinator(s):Dr. Mary Lou VallanoPrerequisite(s):NonePeriod Offered:FallCourse Description: This is a course consistingof about 70 lectures (plus demonstrations andlaboratories) contained in the medical college courseMammalian Physiology. The lectures cover materialin cardiovascular, respiratory, renal, gastrointestinaland endocrine physiology. Exams follow each of theunits.The course begins in November and continuesthrough March. Lectures will follow the lectureschedule of the College of Medicine course inMedical Physiology.Textbook(s):To be assignedDIRECTED INDIVIDUAL STUDY INPHYSIOLOGICAL RESEARCH METHODS. . . . . . . . . . . . . . . . . . . . . PHY658Variable CreditCoordinator(s):Dr. Barry Knoxand Neuroscience & Physiology FacultyPrerequisite(s): Course is limited to students inNeuroscience & Physiology,or by special arrangementPeriod Offered: Fall/Spring by arrrangementCourse Description: This is a special researchtraining program designed to acquaint students withspecific areas of research and/or the use of methods,techniques and instrumentation.This course is not offered for thesis or dissertationresearch, which is course 700PHY.Textbook(s):NonePHYSIOLOGY SEMINAR . . . . . PHY6591 Credit HourCoordinator(s):Dr. Barry Knoxand Neuroscience & Physiology FacultyPrerequisite(s):Must be a Physiologygraduate studentPeriod Offered:Fall/SpringCourse Description: Graduate students andfaculty will meet once every other week duringthe academic year for the purpose of discussingcurrent topics in neuroscience and physiology and32departmental research programs. Outside speakersalso participate. Each graduate student is required topresent a critical review of a topic in biology duringa scheduled meeting.Textbook(s):NoneRESEARCH IN PHYSIOLOGYVariable CreditPHY700Coordinator(s):Dr. Barry Knoxand Neuroscience & Physiology facultyPrerequisite(s): Physiology graduate studentPeriod Offered:Fall/SpringCourse Description: Independent research inpreparation for dissertation requirement.Textbook(s):NoneAdditional CoursesGRANT WRITING3 Credit HoursGS605Coordinator(s):Edward J. Shillitoe, PhDPrerequisite: Must have chosen a thesis advisorPeriod offered:SpringCourse description: Students will learn the essentialfeatures of writing research proposals, with anemphasis on the requirements of the NIH.In the first half of the course the principles of clear,unambiguous writing will be presented in lectures,accompanied by analysis of good and bad examples.Each week students will have a written assignmentin which they prepare the different sections ofa proposal that is focused on their own area ofresearch. Students are expected to have some helpfrom their advisors for the completion of eachassignment.In the second half of the course the students willmeet regularly with the course instructor to reviewtheir assignments, which will then be revised asnecessary. The assignments will then be assembledinto a complete proposal, suitable for submissionto a national-level granting agency. In the finalsessions of the course the students will meet as agroup to review and discuss each others’ proposals.Students are storongly encouraged to consult withthe instructor before enrolling, in order to ensurethat the course will meet their needs.The grade for the course will be based on effort andimprovement. These will be judged by attendance,

performance on the assignments, and the classdiscussions.SYSTEMS BIOLOGY OF GENETICS,GENOMICS AND PROTEOMICS GS6284 Credit HoursCourse Coordinator:Dr. David AmbergPrerequisite(s): GS616 Foundations of Molecularand Cellular BiologyGS617 Introduction to Applied Biostatics andResearch DesignPeriod Offered:Spring, odd yearsCourse Description: The goal of this course is totrain graduate students in modern experimentaland theoretical methods to perform systems levelinvestigations into modern questions in genetics,genetic influences on human disease and geneexpression. The course is divided into 4 sectionswith 4 exams. The focus of section 1 is to providethe student with a basic understanding of thegenetics of inheritance, how to study complexgenetic interactions and how genomic approachescan be used to define genetic networks. The focus ofsection 2 is on genome organization, evolution, andpopulation genetics. Section 3 considers linkage andassociation analysis for identifying genetic influenceson human disease, QTL studies, mouse genetics, andthe use of microarrays for systems level expressionanalysis, linkage analysis and network construction.The course finishes with a comprehensive coverageof protein identification and sequencing by massspectrometry,proteome identification by massspectrometry,and data analysis of proteome datafor delineation of protein complexes and expressionprofiling.Location:Room 3109 Weiskotten HallBIOMOLECULAR X-RAY DIFFRACTION:THEORETICAL BASIS ANDEXPERIMENTAL PROCEDURES GS6324 Credit HoursCourse Coordinator:Debashis Ghosh, PhDInstructors:Drs. Edward Berry,Stephan Wilkens, Stewart Loh, Thomas Duncan,Ziwei Huang, Michael Cosgrove (Syracuse Univ.),Wenhua Jiang and Debashis Ghosh.Period Offered:Fall, odd yearsLectures:Mondays and Fridays (10-11 AM)Labs/Computer Labs:Wednesdays 1-4 pmLab in RM 230 Library(the first hour is set aside for lecture / instruction /introduction to the project, followed by 2 hours’ ofhands on project / lab work)Course Description: An introduction to the theoryand practices of X-ray diffraction and crystallographicmethods applicable to the elucidation of structurefunctionrelationships of biological moleculesand interactions thereof. The course is designedto provide a comprehensive understanding ofthe basic principles through in-depth theoreticaldiscussion, extensive problem solving and hands-onexperimental and computational steps through thebiomolecular structure solution process. The coursealso provides hands-on exposure to computationaltools, such as homology modeling, docking andnormal mode analysis. Prerequisite: undergraduate(senior level) biochemistry, chemistry, physics orphysical chemistry or permission of the instructor.Objectives: Essential for graduate studentspursuing X-ray crystallographic analysis of biologicalmacromolecules in particular and structural biologyin general for their thesis work, the course offers aunique opportunity in the SUNY Upstate-ESF-SUcorridor to gain comprehensive background andtraining in one of the most informative state-ofthe-artbiophysical techniques as applied to theelucidation and analysis of three-dimensionalstructures of biological macromolecules andutilization thereof.33

ORTHOPEDIC BASIC SCIENCE1 Credit Hours Hour/semesterOBS610Instructor(s): Megan Oest, Ph.D. (Coordinator),and members of the Orthopedic Surgeryand Research FacultyPrerequisite(s): Permission of course coordinatorPeriod offered:Fall/SpringCourse Description: This course is intended toprovide a broad overview of basic musculoskeletalscience for graduate studies. It is also taken byorthopedic residents and medical students withinterest in orthopedics. Biweekly 1 hour lecturesare given over the entire academic year by expertsclosest to their respective subjects. This coursecovers, in broad perspective, the basic principlesthat underlie the function of the elements of themusculoskeletal system including their form andfunction, growth and development, injury andrepair. Topics include: articular cartilage, tendons,ligaments, skeletal muscle, bone, physeal function,intervertebral disc, molecular and cellular biologyof bone and musculoskeletal tissues, peripheralnerve injury and repair, biomechanical fundamentalbioelectricity, orthopedic biomaterials, geneticsand the skeleton, prosthetics and orthotics, andprinciples of experimental design.While there are not stated Prerequisite(s): ,prospective students should obtain permission ofthe course coordinator prior to registration.Textbook(s): Orthopedic Basic Science, S.R. Simon,edit., American Academy of Orthopedic Surgeons34

FORMS ANDREQUIREMENTS

DEPARTMENT OF CELL AND DEVELOPMENTAL BIOLOGYM.S. Degree Requirements ChecklistStudent’s Name:Semester/Year Entered:1. Required Graduate Courses: Credit YearHours Completed GradeGS618 Responsible Conduct of Scientific Research (Research Ethics) I 1GS619 Responsible Conduct of Scientific Research (Research Ethics) II 1Additional courses determined in consultation with advisor (see elective suggestions below)Elective Suggestions:GS605 Grant Writing 3GS616 Foundations of Molecular and Cellular Biology 4GS617 Introduction to Applied Biostatistics and Research Design 2GS628 Systems Biology of Genetics, Genomics and Proteomics 4GS892 Introduction to the Presentation and Analysis ofScientific Literature: Journal Club 1A505 Human Anatomy 9A507 Introduction to Neuroscience 3A517 Microscopic Anatomy 4A613 Graduate Cellular Anatomy 2A621 Neuroanatomy Lab 2A622 Developmental Biology 2B649 Topics in Quantitative Biology 1B664 Protein Sorting and Vesicular Trafficking 1B666 Protein Structure Determination 2N620 Advanced Topics in Receptors and Cell Signaling 1N623 Systems Neuroscience 3PHA615 Apoptosis and Cancer Pharmacology 2PHA621 Cancer Biology and Therapeutics 12. Total Didactic Graduate (minimum of 20 credit hours):3. Department Seminar Series (attendance required at all seminars)4. Dissertation Committee Meetings (minimum of one meeting per year):Members: (Sponsor) Dates:(Chair)5. Dissertation Defense: Date: Final Approval Date:39

DEPARTMENT OF CELL AND DEVELOPMENTAL BIOLOGYPh.D. Degree Requirements ChecklistStudent’s Name:Semester/Year Entered:1. Required Graduate Courses: Credit YearHours Completed GradeGS604 Graduate Student Research Opportunities 0GS605 Grant Writing 3GS612 Biomedical Sciences Lab Rotations (2 credits each) 6Rotation Labs:GS616 Foundations of Molecular and Cellular Biology 4GS617 Introduction to Applied Biostatistics and Research Design 2GS618 Responsible Conduct of Scientific Research (Research Ethics) I 1GS619 Responsible Conduct of Scientific Research (Research Ethics) II 1GS892 Introduction to the Presentation and Analysis of Scientific Literature:Journal Club 11. Elective Suggestions: Credit YearHours Completed GradeGS628 Systems Biology of Genetics, Genomics and Proteomics 4A505 Human Anatomy 9A507 Introduction to Neuroscience 3A517 Microscopic Anatomy 4A613 Graduate Cellular Anatomy 2A621 Neuroanatomy Lab 2A622 Developmental Biology 2B647 Gene Expression and Epigenetic Regulation 3B649 Topics in Quantitative Biology 1B664 Protein Sorting and Vesicular Trafficking 1B666 Protein Structure Determination 2N620 Advanced Topics in Receptors and Cell Signaling 1N623 Systems Neuroscience 3PHA615 Apoptosis and Cancer Pharmacology 2PHA621 Cancer Biology and Therapeutics 12. Total Didactic Graduate Courses (minimum of 30 credit hours):3. Department Seminar Series (attendance required at all seminars)4. Qualifying Examination (to be completed by end of 5th semester): Date:5. 30 min Departmental Seminar (to be presented within 6 mos. of qualifying exam): Date:Continued on next page41

6. Thesis Advisory Committee Meetings (minimum of one meeting per year):Members:(minimum 3 facultymembers,including sponsor)Dates:7. Dissertation Committee (minimum 6 faculty members including Thesis Advisory Committee members; maximum 3 members from the Dept of Celland Dev Biology and at least one member from outside SUNY Upstate)Members:8. Dissertation Defense: Date: Final Approval Date:42

DEPARTMENT OF BIOCHEMISTRY AND MOLECULAR BIOLOGYPhD Degree Requirements ChecklistStudent’s Name:Semester/Year Entered:1. Required Graduate Courses: Credit YearHours Completed GradeGS616 Foundations of Molecular and Cellular Biology 4GS617 Introduction to Applied Biostatics and Research Design 2GS618 Responsible Conduct of Scientific Research (Research Ethics) I 1GS619 Responsible Conduct of Scientific Research (Research Ethics) II 1B609 Biochemistry & Molecular Biology Rotations 6or GS612 Biomedical Sciences Laboratory RotationsGS604 Graduate Student Research Opportunities 0GS892Introduction to the Presentation and Analysis of Scientific Literature:Journal Club 1B620 Biochemistry Seminars 0B648 Research Design in Biochemistry & Molecular Biology 3B650 Scientific Writing 1Advanced Courses:At least 6 credits of Advanced Biochemistry & Molecular Biology Courses are required. (Note: GS628 Systems Biology ofGenetics, Genomics, and Proteomics and GS632 Biomolecular X-ray Diffraction: Theoretical Basis and Experimental Procedures,are considered an advanced Biochemistry & Molecular Biology course for this purpose).2. Total Didactic Graduate Courses (minimum of 30 credit hours):3. Qualifying Examination (to be scheduled during the summer following the student’s second year):Graduate Program Committee Approval:Examination Date and Results:4. Dissertation Committee Meetings and Department Research Talk Meeting Letter Received(minimum of one meeting per year): Dates (Advisor)Third Year:Fourth Year:Fifth Year:5. Dissertation Defense: Date: Committee Approved:43

DEPARTMENT OF BIOCHEMISTRY AND MOLECULAR BIOLOGYM.S. Degree Requirements ChecklistStudent’s Name:Semester/Year Entered:1. Required Graduate Courses: Credit YearHours Completed GradeGS616 Foundations of Molecular and Cellular Biology 4GS618 Responsible Conduct of Scientific Research (Research Ethics) I 1GS619 Responsible Conduct of Scientific Research (Research Ethics) II 1B609 Biochemistry & Molecular Biology Rotations 4GS892Introduction to the Presentation and Analysis of Scientific Literature:Journal Club 1B620 Biochemistry Seminars 0Advanced Courses:At least 3 credits of Advanced Biochemistry & Molecular Biology Courses are required.2. Total Didactic Graduate Courses (minimum of 20 credit hours):3. M.S. Thesis Committee Meetings (minimum of one meeting per year): Meeting DatesFirst Year:Second Year:4. Thesis Defense: Date: Committee Approved:45

DEPARTMENT OF MICROBIOLOGY AND IMMUNOLOGYPh.D. Requirements ChecklistStudent’s Name:Semester/Year Entered:1. Required Graduate Courses: Credit YearFirst and second years: Hours Completed GradeGS604 Graduate Student Research Opportunities 0GS612 Biomedical Sciences Laboratory Rotations (1st rotation) 2GS616 Foundations of Molecular and Cellular Biology 4GS617 Introduction to Applied Biostatistics and Research Design 2GS618 Responsible Conduct of Scientific Research (Research Ethics) I 1GS612 Biomedical Sciences Laboratory Rotations (2nd rotation) 2GS612 Biomedical Sciences Laboratory Rotations (3rd rotation) 2GS892Introduction to the Presentation and Analysis of Scientific Literature:Journal Club 1GS619 Responsible Conduct of Scientific Research (Research Ethics) II 1M627 Intro to Virology 2M628 Intro to Immunology 2*M616 Current Concepts in Virology 3*M610 Problems in Cell and Molecular Immunology 3M624 Microbiology and Immunology Journal and Seminar Series 2 x 2M623 Directed Individual Study in Micro. and Immuno. Research variableGS605 Elective: Grant Writing 3Third Year & Following YearsM700Research in Microbiology & ImmunologyM624 Microbiology and Immunology Journal and Seminar Series 2 creditseach semesterEach student will assist in the Medical Microbiology laboratory courses (second, third, and possibly fourth, not the final thesis year).* Students must take either 6 credits of both M616 and M610 or 3 credits of one of these advanced courses plus 3 credits of another advancedcourse offered by College of Graduate Studies degree-granting programs.2. Qualifying Examination: Schedule by the End of Year IIThe committee consists of at least three Microbiology and Immunology department faculty members and a minimum ofthree outside-department faculty members. The exam is scheduled by the end of the second year, and can be taken insummer or early fall. Exam components: dissertation project proposal and a review of one of two questions submitted bythe committee, and an oral examination. Two months are allowed to complete the proposal and to address the questionbefore the oral examination.Committee Members: (Name, Department)(Cmte. Chair)Sponsor / Advisor:Dean’s Approval of Cmte.:(Initials or date of approval notice)Exam Date:Exam Outcome:Continued on next page47

3. Dissertation Advisory Committee: Chosen After Passing Qualifying Examination The committee consists of 5 on-campusmembers, including the Advisor (but not more than three may have primary appointments in the same department). Thecommittee must meet at least twice per year during the dissertation research period, and committee must sign-off onstudent’s readiness to write & defend dissertation.Committee Members: (Name, Department)Dept. Chair’s Approval:(Dissertation Advisor) (Initials or date of approval notice)Meeting Dates:Year IIIYear IVYear VYear VI4. Submission of First-Author (or Co-First-Author) Research Paper: Students in Microbiology & Immunology are required tosubmit at least one first-author or co-first-author research paper for publication prior to the Dissertation Defense.Journal submitted to:Date submitted:Current status:5. Dissertation Defense Committee: Chosen by the Beginning of Final Year The committee consists of the 5 members of theDissertation Advisory Committee (including the Advisor), plus one off-campus member, and may be supplemented byadditional members; final composition must be approved by the Dean.Committee Members: (Name, Department)(Cmte. Chair)Dept. Chair’s Approval:(Initials or date of approval notice)Dissertation Defense Date:Defense Outcome:48

DEPARTMENT OF MICROBIOLOGY AND IMMUNOLOGYM.S. Requirements ChecklistStudent’s Name:Semester/Year Entered:1. Required Graduate Courses: Credit YearHours Completed GradeGS616 Foundations of Molecular and Cellular Biology 4GS618 Responsible Conduct of Scientific Research (Research Ethics) I 1GS619 Responsible Conduct of Scientific Research (Research Ethics) II 1M627 Intro to Virology 2M628 Intro to Immunology 2*M616 Current Concepts in Virology 3*M610 Problems in Cell and Molecular Immunology 3M624 Microbiology and Immunology Journal and Seminar Series 4 x 2M623 Directed Individual Study in Micro. and Immuno. Research variableGS605 Elective: Grant Writing 3GS617 Elective: Introduction to Applied Biostatistics and Research Design 2* Either M616 or M610 is required.2. Degree ConferralDate:49

DEPARTMENT OF MICROBIOLOGY AND IMMUNOLOGYMD/Ph.D. Requirements ChecklistStudent’s Name:Semester/Year Entered:Credit Year1. Required Graduate Courses: Hours Completed GradeGS618 Responsible Conduct of Scientific Research (Research Ethics) I 1GS619 Responsible Conduct of Scientific Research (Research Ethics) II 1*M616 Current Concepts in Virology 3*M610 Problems in Cell and Molecular Immunology 3GS617 Introduction to Applied Biostatistics and Research Design 2M700 Research in Microbiology & Immunology variableM624 Microbiology and Immunology Journal and Seminar Series 2 x 2* Students must take either 6 credits of both M616 and M610 or 3 credits of one of these advanced courses plus 3 credits of anotheradvanced course offered by College of Graduate Studies degree-granting programs.2. Qualifying Examination: Schedule by the End of Year IIThe committee consists of at least three Microbiology and Immunology department faculty members and a minimum ofthree outside-department faculty members. The exam is scheduled by the end of the second year, and can be taken insummer or early fall. Exam components: dissertation project proposal and a review of one of two questions submitted bythe committee, and an oral examination. Two months are allowed to complete the proposal and to address the questionbefore the oral examination.Committee Members: (Name, Department)(Cmte. Chair)Sponsor / Advisor:Dean’s Approval of Cmte.:(Initials or date of approval notice)Exam Date:Exam Outcome:3. Dissertation Advisory Committee: Chosen After Passing Qualifying Examination The committee consists of 5 on-campusmembers, including the Advisor (but not more than three may have primary appointments in the same department). Thecommittee must meet at least twice per year during the dissertation research period, and committee must sign-off onstudent’s readiness to write & defend dissertation.Committee Members: (Name, Department)(Dissertation Advisor)Dept. Chair’s Approval:(Initials or date of approval notice)Meeting Dates:Year IIIYear IVYear VYear VI4. Submission of First-Author (or Co-First-Author) Research Paper: Prior to Defense Students in Microbiology & Immunologyare required to submit at least one first-author or co-first-author research paper for publication prior to the DissertationDefense.Journal submitted to:Date submitted:Current status:Continued on next page51

5. Dissertation Defense Committee: Chosen by the Beginning of Final Year The committee consists of the 5 members of theDissertation Advisory Committee (including the Advisor), plus one off-campus member, and may be supplemented byadditional members; final composition must be approved by the Dean.Committee Members: (Name, Department)(Cmte. Chair)Dept. Chair’s Approval:(Initials or date of approval notice)Dissertation Defense Date:Defense Outcome:52

NEUROSCIENCE PROGRAMPh.D. Requirements ChecklistStudent’s Name:Semester/Year Entered:The didactic credit requirement towards the PhD (min 30 cr) is satisfied through 15 cr of required GS coursework and 15 or morecredits from NS courses (up to 2 cr of non-NS courses can be counted without petition). Credit accrual towards NS programrequirements can begin in the 1st semester of graduate school with N6XX and reach 30 cr by the end of the 2nd year in thegraduate program.Required courses (including GC credits): Credit YearHours Completed GradeGS604 Graduate Student Research Opportunities (fall, yr1) 0GS612 Biomedical Sciences Laboratory Rotations (fall and spring, yr 1)or N675 Research Rotations in Neuroscience 6GS616 Foundations of Molecular and Cellular Biology (fall, yr 1) 4GS617 Introduction to Applied Biostatistics and Research Design (fall, yr 1) 2GS618 Responsible Conduct of Scientific Research I (fall, yr 1) 1GS892 Presentation and Analysis of Scientific Literature: Journal Club 1(spring, yr 1)GS619 Responsible Conduct of Scientific Research II (fall, yr 2) 1N507 Medical Neuroscience (spring, yr 1) - if available 3ORN601 Neuroscience (Spring, yr 1) 3N629 Scientific Writing in Neuroscience (fall, yr 2)N627 Grant Writing in Neuroscience (spring, yr 2) 3Electives:N631 Topics in Neuroscience 1(only open to 1st yr students; FALL; WEEKS 8-14)N602 Cell Physiology of Exitable Cells (Same as PHA602 and PHY602) 2N610 Topics in Developmental Neurobiology 2N616 Topics in Vision Research I 2N617 Methods in Neuroscience Research 2N618 Topics in Vision Research II 2N619 Neurobiology of Disease 2N620 Advanced Topics in Receptors & Cell Signaling 1N621 Neuroanatomy Lab (same as A621) 2N623 Systems Neuroscience 3N628 Neurobiology of Addiction 2N653 Topics in Cellular and Molecular Neurobiology 2N630 Independent Studies in Neuroscience (1-3 variable credit)Suggested NS Curriculum (see available courses above):Year 1 (8 NS cr)Fall II N631 Topics in Neuroscience 1Spring I N617 Methods in Neuroscience Research 2Continued on next page53

Spring II N507 Medical Neuroscience OR N601 Neuroscience 3Spring II N621 Neuroscience Lab 2Year 2 (min. 7 cr)Credit HoursFall N629 Scientific Writing 1Spring N627 Grant Writing in Neuroscience 3Fall & Spring Additional NS Electives (variable credits, 3 courses suggested 3+Presentations:Each student in the Neuroscience Graduate Program is required to attend the complete seminar series and to present a seminarto the members of the Program each year.Qualifying Examinations:Each student must pass a PhD Qualifying Examinateion that includes written and oral sections. This is traditionally taken duringthe summer following the student’s second year.Dissertation:The final requirement is a written dissertation and thesis oral defence based on the student’s original research followed by apublic seminar.54

DEPARTMENT OF PHARMACOLOGYPhD Degree Requirements ChecklistStudent’s Name:Semester/Year Entered:1. Required Graduate Courses: Credit YearHours Completed GradeGS616 Foundations of Molecular and Cellular Biology 4GS617 Introduction to Applied Biostatistics and Research Design 2GS604 Graduate Student Research Opportunities 0GS612Biomedical Sciences Lab Rotations ORPHA653 Pharmacology Laboratory Rotations 6GS618 Responsible Conduct of Scientific Research (Research Ethics) I 1GS619 Responsible Conduct of Scientific Research (Research Ethics) II 1GS605 Grant Writing 3GS892Pharmacology CoursesIntroduction to the Presentation and Analysis of Scientific Literature:Journal Club 1PHA610 Principles of Pharmacology* 1PHA612 Cardiovascular Physiology and Pharmacology* 1PHA602 Cell Physiology of Excitable Cells* 2PHA615 Apoptosis and Cancer Pharmacology* 2PHA618 Current Topics of Pharmacology* 1PHA619 Autonomic Pharmacology* 1PHA622 Principles and Practices of Drug Discovery and Development 1PHA540 Pharmacology 7PHA645 Pharmacology Seminar (one per academic year) 0* All Pharmacology PhD students must take either 4-6 credits of Pharmacology courses indicated with an asterisk (PHA610is required) or PHA540.2. Total Didactic Graduate Courses (minimum of 30 credit hours):3. Qualifying Examination (to be scheduled during the summer following the student’s second year):Graduate Program Committee Approval:Examination Date and Result:4. Dissertation Committee Meetings (minimum of one meeting per year): MeetingDatesGradeThird Year:Fourth Year:5. Dissertation Defense: Date: Committee Approved:55

PHYSIOLOGY PROGRAMPh.D. and M.S. Requirements ChecklistStudent’s Name:Semester/Year Entered:An undergraduate degree, either in the biological or physical sciences or in engineering, is required for admission into thegraduate program leading to the Ph.D. Degree. Applicants are also expected to have completed undergraduate courses inbiology, calculus, physics and organic chemistryRequired didactic courses (minimum of 30 credits):Credit Year1. Core Curriculum Hours Completed GradeFirst YearFallSpringGS604 Graduate Student Research Opportunities 0GS612 Biomedical Sciences Laboratory Rotations (1st Rotation) 2GS616 Foundations of Molecular and Cellular Biology 4GS617 Introduction to Applied Biostatistics and Research Design 2GS618 Responsible Conduct of Scientific Research (Research Ethics) I 1GS612 Biomedical Sciences Laboratory Rotations (2nd Rotation) 2GS612 Biomedical Sciences Laboratory Rotations (3rd Rotation) 2GS892Second YearFallIntroduction to the Presentation and Analysis of Scientific Literature:Journal Club 1GS619 Responsible Conduct of Scientific Research (Research Ethics) II 1In addition, students must take additional advanced electives.2. Required Physiology CoursesPHY657 Systems Physiology - Spring 6PHY659 Physiology Seminar – Fall/Spring 13. Advanced CoursesPHY627 Grant Writing Course in Neuroscience & Physiology 3Specialty courses and biostatistics selected to support and enrich the student’s research area.Presentations: Each student in the Physiology Graduate Program is required to attend the complete seminar series andto present a seminar to the members of the Program each year. A final seminar will be presented as the oral part of thedissertation defense.Qualifying Examination: Soon after the completion of didactic course requirements, each student must pass a PhD QualifyingExamination that includes written and oral sections. This is traditionally taken at the end of the spring of the second year.Dissertation: A dissertation describing the results of original research is required along with an oral defense.M.S. DegreeMaster Student programs are tailored to meet individual student needs.MS students are required to take:First YearFallGS618 Responsible Conduct of Scientific Research 1Second YearFallGS619 Responsible Conduct of Scientific Research (Research Ethics) II 1Additional courses determined by degree granting program and Advisor.57

College of Graduate StudiesWeiskotten Hall • 766 Irving AvenueSyracuse, New York 13210 • 315-464-4538www.upstate.eduF83165 Rev. 6/2013