2011-12 Faes Grad School Catalog

2 0 1 1 2 0 1 2 C a t a l o g o f G r a d u a t e a n d U n d e r g r a d u a t e C o u r s e s

Fifty second yearF A E S G R A D U A T E S C H O O L A T N I H

S H A R I N G K N O W L E D G E . C R E A T I N G O P P O R T U N I T Y .

F A E S G R A D U A T E A N D U N D E R G R A D U A T E C O U R S E S A T N I H 2 0 1 1 - 2 0 1 2

FALL SEMESTER

July 1-Aug. 23 Online registrationAug. 19 Last day for mail registrationAug. 23 Open House*Aug. 29 Sept. 7 Walk-in RegistrationSept. 8 Oct. 8 Late Walk-in Registration ( ($10.00 late registration fee) Sept. 12 Classes beginSept. 23 Last day of course transfer -without feeOct. 8 Last day to registerOct. 10 Columbus Day No classesOct. 21 Last day to withdraw and TransferNov. 10 Last day to change status (credit/audit or vice versa)**Nov. 11 Veterans Day - No classesNov. 24 Thanksgiving DayNo classesDec. 16 Close of Fall Semester***

The Registrars Offi ce and Bookstore will be open 5-8 p.m. during the fi rst week of classes, in addition to regular hours. * PLEASE JOIN US FOR OUR OPEN HOUSE ON AUGUST 23, 2011 FROM 4:00PM-7:00PM AT THE SOCIAL AND ACADEMIC CENTER, LOCATED AT 9101 OLD GEORGETOWN ROAD, BETHESDA. WALK-IN REGISTRATION WILL BE ACCEPTED. ** Please call Registrars offi ce for deadline to change status or withdraw from courses that are not on the 14 or 16 week schedule. *** Class meetings that are canceled for any reason will be made up.

Registration by MailAdvance registration is possible by mail by completing and sending the attached form with tuition check or contract to FAES at NIH, 1 Cloister Court, (Bldg. 60, Suite 230) until August 19.

Introducing Online Registration for FALL 2011 semester July 1 August 23, 2011. Students who have taken previous FAES courses (includ-ing BIOTRAC) will need to email Priyanka Basa at [email protected] to request a new password. New students can create an account at www.faes.org and follow the online instructions on how to register between July 1st - August 23rd.

Online registrations paying with check, Purchase Order or Training Nomination form will not be completed until payment is received (mail or walk-in) within fi ve (5) business days. FAES Faculty and family members must register by mail or in person.

Do not send registration card without some form of payment.

Please note: Asking your institute to pay for training does not constitute registration. If you are registering by mail, you need to send the Training NominationSF182 Form (signed) and a Registration Card (see deadline for mail registration). If you are registering in person, you need to bring the Training NominationSF182 Form and a Registration Card (see dates for in-person registration).

If you are paying your tuition with a credit card, (Visa, MC or Discover) you may fax your registration to 301-402-0174 up until August 19.

Please note: SF182 forms are available from your Administrative Offi cer.

Registration in Person

Registration in person will be held in Bldg. 60, Suite 230 in accordance with the dates below.

FALL

10 a.m. 4 p.m. August 29, 30, 31, Sept. 1, 2, 6, 75 7 p.m. Tuesday, September 6

Catalog Information

Catalogs may be obtained free of charge in the FAES Offi ces (Bookstore Bldg. 10, Room B1-L-101, Business Offi ce Bldg. 10, Rm. B1-C-18, or Administrative Offi ce Bldg. 60, Suite 230) or visit our website at www.faes.org

For Further Information FAES Graduate School 301-496-7976 Business Offi ce 301-496-8064 Bookstore 301-496-5272.

Calendar for 2011-2012

SPRING SEMESTER

Dec. 30 Last day for mail registrationJan 4 Open House Jan. 9 18 Walk-in RegistrationJan. 19 Feb. 18 Late Walk-in Registration ($10.00 late registration fee)Jan. 24 Classes beginFeb. 4 Last day of course transfer -without feeFeb. 18 Last day to registerFeb. 20 Presidents DayNo classesMar. 2 Last day to withdraw and TransferApril 13 Last day to change status (credit/audit or vice versa)**May 11 Close of Spring Semester***

SPRING

10 a.m. 4 p.m. Jan. 9, 10, 11, 12, 13, 17, 185 7 p.m. Tuesday, Jan. 17

F A E S G R A D U A T E A N D U N D E R G R A D U A T E C O U R S E S A T N I H 2 0 1 1 - 2 0 1 2 i

FAES Graduate and Undergraduate Courses at NIH

2011-2012

Dean Constance Tom Noguchi, Ph.D.

Registrar Audrey L. Lyons

FOUNDATION FOR ADVANCED EDUCATION IN THE SCIENCES, INC.

Postal Address:One Cloister Court, Suite 230Bethesda, Maryland 20814-1460

Inter-Offi ce Address:Building 60Suite 230

Catalog

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President ....................................................................................................................................................................................... Earl Laurence, M.B.A.First Vice President ..................................................................................................................................................................... Kathleen Clouse, Ph.D.Second Vice President .................................................................................................................................................................. Warren Leonard, M.D.Treasurer ......................................................................................................................................................................................... Shelby Berger, Ph.D.Secretary ......................................................................................................................................................................................... Carol J. Thiele, Ph.D.

Ann Ashby, M.B.A. Barbara A. Baird, Ph.D. Sherri Bale, Ph.D. Michael A. Beaven, Ph.D. Edwin D. Becker Steven J. Berkowitz, CPA, MBA Mark R. Cookson, Ph.D. William R. Galey, Ph.D. Angela Gronenborn, Ph.D. John Hanover, Ph.D. Deborah M. Hinton, Ph.D. Caroline Jochems, M.D., Ph.D. Electron Kebebew, M.D. Jeffrey B. Kopp, M.D. Larry Laughlin, M.D., Ph.D. Susan Leitman, M.D.

Ex-Offi cio Member

Administrative StaffAlexis Alleyne, B.A ...........................................................................................................................................................Insurance Program/HR ManagerNancy Avent .................................................................................................................................................................................... Insurance SupervisorPriyanka Basa, B.S ...............................................................................................................................................................Communications CoordinatorShawna Clay, A.A ................................................................................................................................................................................ Insurance AssistantCarline Coote, B.S .............................................................................................................................................................................Conference ManagerShawn Foreman .......................................................................................................................................................................................Staff AccountantJaleh Gormley, B.A ...................................................................................................................................................................................Staff AccountantAudrey Lyons ........................................................................................................................................................................................................RegistrarManny Mekonnen, B.S ........................................................................................................................................................................Bookstore AssistantRose McNeeley, B.S. ....................................................................................................................................................................................SAC ManagerDarlissa Musgrove ...............................................................................................................................................................................Bookstore AssistantElizabeth Perkins, B.A ......................................................................................................................................................................... Bookstore ManagerMarie Perng, B.A., CPA .........................................................................................................................................................................Senior AccountantJennifer Schultze, B.S.......................................................................................................................................................................... Insurance AssistantPaul Schwobel, CPA ............................................................................................................................................................................................ControllerBeatrice Sonnenberg ............................................................................................................................................................................ Assistant RegistrarDanita Waker, MPH ..................................................................................................................................................................... Administrative AssistantMelissa Zhong, B.A. ............................................................................................................................................................................ Insurance Assistant

This is the catalog for the 2011-2012 Academic Year. A schedule giving only the day and hour for Spring 2012 courses will be published. Please retain this catalog for all other information; copies are limited in number.

FAES Board of Directors

Derek LeRoith, M.D., Ph.D. Sharon Milgram, Ph.D. (Liaison) Constance T. Noguchi, Ph.D. Harvey B. Pollard, M.D., Ph.D. Paul Plotz, M.D. Jeffrey V. Ravetch, M.D., Ph.D. Tracey Rouault, M.D. Lawrence E. Samelson, M.D. Paul Schwobel, CPA Edward Tabor, M.D. Simeon Taylor, M.D. Robert Temple, M.D. Maria L. Turner, M.D. Richard G. Wyatt, M.D. (Liaison) Marian Young, Ph.D.

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Fall 2011 Semester Schedule ........................................................................................................................................................................................1

Regulations and Procedures .........................................................................................................................................................................................3

Lists of Board Review Courses ...................................................................................................................................................................................38

Biochemistry and Biophysics .......................................................................................................................................................................................6

BIOC 301 Biochemistry IBIOC 302 Biochemistry IIBIOC 315 Protein BiochemistryBIOC 316 Structure and Function of Biological MacromoleculesBIOC 433 Current Methodology in Nucleic Acid Structure and Function ResearchBIOC 505 Cell Membrane and Intracellular Traffi ckingBIOC 527 Biochemistry and Metabolism of LipidsBIOC 533 The Molecular and Cellular Basis of Intercellular CommunicationBIOC 539 Recent Discoveries in Molecular Biology

Bioinformatics ................................................................................................................................................................................................................ 8BIOF 309 Introduction to PythonBIOF 312 Introduction to PerlBIOF 411 Introduction to GenomicsBIOF 429 Practical BioinformaticsBIOF 502 Medical Genomics for Clinicians and Researchers BIOF 518 Theoretical and Applied BioinformaticsBIOF 537 Computational BiologyBIOF 538 Biological Database DesignBIOF 552 Medical Genomics for Clinicians and Researchers

Biology and Genetics ..................................................................................................................................................................................................10BIOL 101 Introductory BiologyBIOL 102 Introductory Biology-GeneticsBIOL 262 Molecular Approaches to Studying DiseasesBIOL 317 Molecular Cell BiologyBIOL 319 Stem Cells and Their NichesBIOL 325 Basic Human NeuroanatomyBIOL 327 Modern Developmental BiologyBIOL 338 Epigenetics and Medical DisordersBIOL 435 Current Trends in the Neurobiology of Mental IllnessBIOL 504 Developmental and Synaptic NeuroplasticityGENE 415 Control of Gene ExpressionGENE 500 Introduction to Medical GeneticsGENE 505 Embryology, Developmental Biology and Human MalformationsGENE 510 Genetic Counseling: Professional Topics SeminarGENE 514 Current Concepts in Clinical Molecular Genetics and Molecular DiagnosticsGENE 644 A Review of Medical Genetics

Biotechnology (BIO-TRAC) ..........................................................................................................................................................................................14TRAC 1 Biotechnology TechniquesTRAC 2 Recombinant DNA Methodology ITRAC 3 Recombinant DNA Methodology IITRAC 4 Cellular Immunology: Principles and MethodsTRAC 5 Separation TechniquesTRAC 6 Cellular and Molecular Basis for Understanding, Diagnosis and Therapy of CancerTRAC 7 Animal and Human Cell Culture: Methods and ApplicationsTRAC 8 Immunochemistry and Monoclonal Antibody ProductionTRAC 9 Polymerase Chain Reaction and Molecular Hybridization TechnologyTRAC 10 Protein DNA Interactions: Gene Specifi c and Epigenetic Regulation of Expression of the Mammalian GenomeTRAC 11 Genome AnalysisTRAC 12 Transgenic Technology: Methods and Application

Table of Contents

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TRAC 15 Two Hybrid Selection: Identifi cation and Characterization of ProteinProtein InteractionsTRAC 16 Expression, Detection & Purifi cation of Recombinant Proteins in Prokaryotic & Eukaryotic CellsTRAC 18 Stem CellsTRAC 19 Mutation Detection and Analysis: Molecular ApproachesTRAC 20 ImmunocytochemistryTRAC 21 Mitochondrial Molecular Biology and Pathology WorkshopTRAC 22 Hybridization Techniques: Labeling, Detection and ApplicationsTRAC 23 Flow Cytometry: Principles and MethodsTRAC 24 DNA Microarrays: Principles and Applications of DNA MicroarraysTRAC 25 Proteomics: Principles and MethodsTRAC 26 PCR Methodology: Principles, Optimization and ApplicationsTRAC 28 Angiogenesis: Analytical Techniques for the Quantitation of Angiogenesis and LymphoangiogenesisTRAC 29 Laser Capture Microdissection (LCM): Methods for Microgenomic AnalysisTRAC 30 Small Interfering RNA (siRNA) and Functional GenomicsTRAC 31 Vaccines: Development and Evaluation of Effi cacyTRAC 32 Nanotechnology in MedicineTRAC 33 Clinical Proteomics and Biomarker DiscoveryTRAC 34 Advanced Microarray Analysis and Pathway IntegrationTRAC 35 Immunofl uorescence and Confocal MicroscopyTRAC 36 Cell Line Identifi cation and AuthenticationTRAC 37 Real Time and Quantitative PCR TRAC 38 Digital Imaging in MicroscopyTRAC 39 EpigeneticsTRAC 40 Protein InformaticsTRAC 41 miRNA: Tools and Technologies for the Quantitative and Functional Analysis in Mammalian CellsTRAC 42 Junior Scientist Training ProgramTRAC 43 Ips Cells: Principles and Methods

Chemistry, Physics and Imaging ................................................................................................................................................................................ 24CHEM 101 General Chemistry ICHEM 102 General Chemistry IICHEM 211 Organic Chemistry ICHEM 212 Organic Chemistry IICHEM 220 Physical Chemistry with Applications to the Biological SciencesCHEM 244 Practical NMR Spectroscopy: Basic Methods for Characterizing MoleculesCHEM 327 The Art of Drug Design and DiscoveryCHEM 341 Advances in Synthetic Organic Chemistry ICHEM 342 Advances in Synthetic Organic Chemistry IIIMAG 409 Principles and Applications of Magnetic Resonance Imaging (MRI) in BiomedicinePHYS 201 Introductory Physics IPHYS 202 Introductory Physics IIPHYS 245 Topics in Modern Physics-Relativity, Quantum Mechanics and Cosmology

Education and General Studies ..................................................................................................................................................................................26GENL 161 Art Songs: Chamber Music with Words Lecture and LIVE performancesGENL 163 Qi Gung and Tai Chi with a Brief Review of Chinese Martial ArtsGENL 319 MCAT- ReviewGENL 322 GRE-ReviewGENL 511 Boot Camp for University Teaching

Immunology and Microbiology ...................................................................................................................................................................................27IMMU 403 Basic Principles of Immunology and HypersensitivityIMMU 419 Vaccines 2012IMMU 504 Allergy and Clinical ImmunologyIMMU 521 Molecular and Cellular Mechanisms of Immunity IIMMU 522 Molecular and Cellular Mechanisms of Immunity IIMICR 211 Introductory and General MicrobiologyMICR 317 Introduction to Molecular VirologyMICR 418 Emerging Infectious DiseasesM ICR 432 Human VirologyMICR 527 Introduction to HIV/AIDS Research

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Languages ..................................................................................................................................................................................................................... 29CHIN 101 Introduction to ChineseCHIN 102 Intermediate ChineseCHIN 301 Practical Chinese ICHIN 302 Practical Chinese IICHIN 401 Chinese Literature ICHIN 402 Chinese Literature IIENGL 105 Fundamental English Conversation IENGL 108 Fundamental English Conversation IIENGL 205 Intermediate English IENGL 207 Intermediate English IIENGL 302 Advanced English Conversation IENGL 304 Advanced English Conversation IIENGL 305 Advanced English Structure IENGL 306 Advanced English Structure IIFRCH 101 French for Beginners IFRCH 102 French for Beginners IIFRCH 201 Intermediate French IITAL 101 Italian for Beginners IITAL 102 Italian for Beginners II JAPN 101 Introduction to Japanese IJAPN 102 Introduction to Japanese IIJAPN 203 Intermediate Japanese IJAPN 204 Intermediate Japanese IIJAPN 305 Advanced Japanese IJAPN 306 Advanced Japanese IIJAPN 407 Advanced Japanese IIIJAPN 408 Advanced Japanese IVSPAN 101 Spanish for Beginners ISPAN 102 Spanish for Beginners IISPAN 203 Intermediate Spanish ISPAN 204 Intermediate Spanish IISPAN 208 Spanish for Healthcare Providers

Mathematics, Epidemiology & Statistics .................................................................................................................................................................. 33MATH 127 Elementary Calculus IMATH 128 Elementary Calculus IISTAT 200 Introduction to Experimental StatisticsSTAT 317 Introduction to EpidemiologySTAT 318 Statistical Methods in EpidemiologySTAT 321 Methodology in Clinical TrialsSTAT 322 Intermediate EpidemiologySTAT 435 Genetic EpidemiologySTAT 500 Statistics for Biomedical ScientistsSTAT 518 Categorical Data AnalysisSTAT 525 Nonparametric and Robust MethodsSTAT 529 Survival Data Analysis

Medicine and Physiology .............................................................................................................................................................................................35MEDI 211 Introduction to the Principles of EndocrinologyMEDI 217 Human Physiology I: Neural, Cardiovascular, Pulmonary, Sensory, and Neonatal SystemsMEDI 302 Introduction to Chinese AcupunctologyMEDI 303 Regenerative Medicine: Considering Applications and TreatmentsMEDI 316 Biology of CancerMEDI 326 Introduction to Global HealthMEDI 329 Advanced Topics in Cancer: Tumor Microenvironment and MetastasisMEDI 507 Inborn Errors of MetabolismMEDI 522 Neural Immune Interactions in Health and DiseaseMEDI 550 Introduction to the Principles of Clinical ResearchMEDI 552 Demystifying Medicine for Ph.D. Students, Fellows and Staff

Medical Subspecialty Review Courses .......................................................................................................................................................................37MEDI 723 A Review of Endocrinology: Diagnosis and TreatmentMEDI 725 Psychopharmacology and Neuroscience Course: Update 2011

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Pharmacology and Toxicology .................................................................................................................................................................................... 39PHAR 359 Pharmacology of Chinese HerbsPHAR 400 PharmacologyPHAR 500 Principles of Clinical Pharmacology I & IIPHAR 511 Current Concepts in Pharmacology and TherapeuticsTOXI 303 Introductory ToxicologyTOXI 504 Toxicology Principles and Practice

Public Health Certifi cate Program .............................................................................................................................................................................. 41PBHL 501 Environmental HealthPBHL 507 Communicating Science for the Lay AudiencesPBHL 511 Introduction to Applied Public Health NutritionPBHL 512 Social and Behavioral SciencesPBHL 517 Health Policy ManagementPBHL 519 Health DisparitiesPBHL 5xx Public Health in Historical PerspectivePBHL 5xx Ethics in Public HealthPBHL 602 Complexity, Flexibility and Systems ThinkingPBHL 607 Capstone Project in Public Health

Technology Transfer Certifi cate Program ................................................................................................................................................................... 46TECH 501 Inside and Outside the FDATECH 503 Business Law Primer for Life Science EntrepreneursTECH 504 FDA Regulation, Industry, and Hidden Intellectual PropertyTECH 506 Researcher Commercialization Webinar Course: The EssentialsTECH 512 Global Bioethics for Scientists and AdministratorsTECH 513 Introduction to Technology TransferTECH 521 Tools for Technology TransferTECH 565 Biomedical Business Development for ScientistsTECH 566 Biotechnology Business Leadership and ManagementTECH 567 International Strategic Partnering and Business Development TECH 572 Marketing Strategies for Scientifi c OrganizationsTECH 575 Business Finance and Accounting Principles for Scientists IntroductionTECH 576 Topics in Business Management for ScientistsTECH 579 Negotiation WorkshopTECH 582 Intellectual Property and Patent Prosecution for ScientistsTECH 584 Medical Product DevelopmentTECH 586 International Science Technology and Innovation PolicyTECH 587 Planning for Life Science Companies: Transformational Growth and Implications- Organization, Process and TechnologyTECH 592 Public-Private PartnershipsTECH 607 Capstone Course in Technology Transfer

Faculty Biographies and Telephone Numbers ........................................................................................................................................................... 53

Map of NIH .................................................................................................................................................................................................................... 59

Mail Registration Form ............................................................................................................................................................................................ Insert

NOTES:

In the case of a full year course, registration may be made for the entire year or for each semester separately. Failure to reregister for the second semester could result in cancellation of that semester due to lack of enrollment.

Classes are not held on days when government offi ces are closed early or all day due to hazardous weather conditions, or when evening weather conditions are predicted to worsen. If in doubt, contact the school offi ce (301-496-7976) or the instructor.

Biotechnology (TRAC) courses do not follow semester schedules. For exact dates, refer to course descriptions.

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Fall 2011 Semester ScheduleMONDAY

Course Title Instructor Time Tuition

BIOC 301 Introductory Biochemistry I Ho 5:30-8:40 $435BIOF 309 Introduction to Python (7 weeks Sept. 26 Nov. 7) Cherry 5:30-7:40 145BIOL 338 Epigenetics and Medical Disorders (7 weeks Oct. 17-Dec.16) Gebert 5:30-7:40 145CHEM 211 Organic Chemistry I (Wed. required) Freedberg 5:30-7:00 435CHIN 101 Introduction to Chinese Lum 5:30-8:40 435ENGL 105 Fundamental English I Miller 4:15-7:10 435ENGL 302 Advanced English Conversation I Miller 7:10-10:05 435GENL 322 GRE Review (7 weeks) Ou 5:30-7:40 145IMAG 409 Principles and Applications of Magnetic Komlosh 5:30-7:40 290 Resonance Imaging (MRI) in BiomedicineMATH 127 Elementary Calculus Momenan 5:30-8:40 435MEDI 302 Introduction to Chinese Acupunctology Wu 5:30-8:40 435MICR 211 Introductory and General Microbiology Tang 5:30-8:40 435MICR 317 Introduction to Molecular Virology Arya 5:30-7:40 290STAT 200 Introduction to Experimental Statistics I Ghebregiorgis 5:30-8:40 435STAT 529 Survival Data Analysis Hung 5:30-8:40 435TECH 521 Tools for Technology Transfer Goldstein 5:30-7:40 290 (Class will be held at Executive Boulevard)*TOXI 303 Introductory Toxicology Mitkus 5:30-7:40 290

TUESDAY


BIOF 411 Introduction to Genomics Malone 5:30-840 $435BIOL 325 Basic Human Neuroanatomy (Thur. Required) Herkenham 5:30-7:00 435BIOL 435 Current Trends in the Neurobiology of Mental Illness Zarate 5:30-8:40 435CHEM 101 General Chemistry I Metaferia 5:30-8:40 435CHEM 341 Advances in Synthetic Organic Chemistry I Appella 5:30-7:40 290CHIN 301 Practical Chinese Lum 5:30-8:40 435ENGL 105T Fundamental English Conversation I Miller 7:10-10:05 435ENGL 205 Intermediate English I Jorgenson 5:30-8:40 435ENGL 302T Advanced English Conversation I Miller 4:15-7:10 435FRCH 101 French for Beginners I King 5:30-8:40 435FRCH 201 Intermediate French I Banu 5:30-8:40 435GENE 500 Introduction to Medical Genetics I Hart 5:30-7:40 290GENL 161 Art Songs: Chamber Music with Words Epstein/Krash 7:00-9:00 290IMMU 403T Basic Principles of Immunology and Finerty 5:30-7:40 290 Hypersensitivity (also offered Wed.)PBHL 507 Communicating Science to Lay Audiences Kwon/Nelson 5:30-7:40 290PHYS 201 Introductory Physics I Eresian 5:30-8:40 435STAT 317 Introduction to Epidemiology Patel 5:30-8:40 435STAT 321 Methodology in Clinical Trials Rosenberg 5:30-8:40 435STAT 500 Statistics for Biomedical Scientists I Shah 5:30-8:40 435TECH 567 International Strategic Partnering and Business Development Khanna 5:30-7:40 290 (Class will be held at Executive Boulevard)*TECH 575 Business Finance and Accounting Principles Reichman 5:30-7:40 290 for Scientists Introduction (Class will be held at Executive Boulevard)TECH 607 Capstone Course in Technology Transfer Ferguson//Provorny 5:30-8:40 435 (Class will be held at Executive Boulevard)*

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WEDNESDAY


BIOC 527 Biochemistry and Metabolism of Lipids Francis 5:30-8:40 $435BIOF 429 Practical Bioinformatics (10 weeks) Bhagwat 5:00-8:00 290CHEM 211 Organic Chemistry I (Mon. required) Freedberg 5:30-7:00 435CHEM 220 Physical Chemistry with Applications to the Biological Sciences Nyden 5:30-7:40 290 CHIN 401 Chinese Literature I Lum 5:30-8:40 435ENGL 305 Advanced English Structure I Miller 4:15-7:10 435GENE 505 Embryology, Developmental Biology and Human Malformations Biesecker 5:30-6:30 145GENL 163 Qi Gung and Tai Chi with a Brief Review of Chinese Momenan 5:30-7:30 145 Martial Arts (7 weeks) IMMU 403W Basic Principles of Immunology and Finerty 5:30-7:40 290 Hypersensitivity (also offered Tues.)MEDI 303 Regenerative Medicine: Considering Hunsberger 5:30-7:40 290 Applications and TreatmentMEDI 329 Advanced Topics in Cancer: Tumor Microenvironment Rittler/ 5:30-7:30 290 And Metastasis Shuman MossPBHL 517 Health Policy and Management Hafner-Eaton 5:30-8:40 435PHYS 245 Topics in Modern Physics Relativity, Quantum Mechanics Eresian 5:30-7:40 145 and Cosmology (7 weeks) SPAN 101 Spanish for Beginners I Rodriguez 5:30-7:40 290TECH 503 Business Law Primer for Life Science Entrepreneurs Provorny/Vepa 5:30-7:40 290 (Class will be held at Executive Boulevard)*

THURSDAY


BIOF 537 Computational Biology Busby 5:30-8:50 $435BIOL 317 Molecular Cell Biology Espey 5:30-7:50 290BIOL 325 Basic Human Neuroanatomy (Tues. required) Herkenham 5:30-7:00 435IMMU 521 Molecular and Cellular Mechanisms of Immunity I Henkart 5:30-7:50 290ITAL 101 Italian for Beginners Tecuta 5:30-8:50 435JAPN 101 Introduction to Japanese I Moorman 5:30-8:50 435MEDI 211 Introduction to the Principles of Endocrinology Celi 5:30-7:50 290MEDI 217 Human Physiology I: Neural, Cardiovascular, Pulmonary, Sinnarajah 5:30-7:50 290 Sensory & Neonatal SystemsPBHL 511 Introduction to Applied Public Health Nutrition McDowell 5:30-7:50 290 Strategies to Improve Population HealthPHAR 500 Principles of Clinical Pharmacology I (Sept. 1 Dec 15) Lertora 6:30-7:45 290SPAN 203 Intermediate Spanish I Roman 5:30-8:50 435STAT 435 Genetic Epidemiology Major 5:30-8:50 435TECH 565 Biomedical Business Development for Ferguson/Salagaller 5:30-7:50 290 Scientists (Class will be held at Executive Boulevard)*TECH 579 Negotiation Workshop Muroff 5:30-7:50 290TECH 584 Medical Product Development Smith 5:30-7:50 290 (Class will be held at Executive Boulevard)*

FRIDAY


GENE 510 Genetic Counseling: Professional Topics Seminar Biesecker/Madeo 2:30-5:30 $580TECH 587 Planning for Life Science Companies: Transformational Truman 2:00-4:00 290 Growth and Implications Organization, Process and Technology (Class will be held at Executive Boulevard)*

Please note: During the semester, a number of Monday and Thursday classes are not held because of Federal holidays. Monday and Thursday class times have been adjusted accordingly.

* Please note: Students attending classes at Executive Boulevard will be responsible for paying parking fees directly to the attendant.


The Foundation for Advanced Education in the Sciences is organized to foster scientifi c research and education by facilitating com-munication among scientists and by sponsoring formal instruction in the sciences. It was founded by scientists who believe learning, research and teaching are mutually reinforcing processes essential to the evolution of science; that research receives a powerful im-petus from the activities and enterprise of scientists who combine and interchange roles as student, investigator and teacher; and that throughout the search for truth, education must be a continuing, central theme.

Sponsorship and management of The FAES Graduate School at NIH represent one aspect of the Foundations educational activities. We are especially grateful to the outstanding scientists and teachers who have taught and continue to teach these courses.

Regulations and ProceduresAdmission

Courses are open to all qualifi ed persons, both government and non-government. The FAES does not discriminate on the basis of race, color, religion, sex, age, handicap, national or ethnic origin or veteran status, in administration of its educational policies, admissions policies, scholarship programs, and other educational programs.

Entrance RequirementsEntrance requirements differ with the level of the course for which the

student is registering. Undergraduate courses, in general, are open to persons who are graduates of high school or equivalent, or who qualify for the course because of satisfactory work experience. For admission to more advanced courses, college work in the same or related fi eld is specifi ed or understood. For some courses, defi nite prerequisites may be stated. Registration for the second half of a year course requires completion of the fi rst semester or permission of the instructor.

When consent of the instructor is given as a necessary prerequisite for a course, the instructor must be consulted before registration.

Any student who does not have a clear fi nancial record with FAES will not be permitted to register.

AccreditationThe FAES Programs operate with the approval of the Maryland Higher

Education Commission.

Transfer of Credit (see Certifi cate in Technology Transfer Program)

FAES courses do not currently lead to degrees.A student should not assume that credit for work done in FAES courses

at NIH will be granted by any particular college or university, although such credit is generally given. The student who wishes to work for an undergraduate or higher degree should consult in advance the dean or departmental chairman of the institution from which he expects to receive the degree, and receive approval for any courses in the FAES Programs at NIH that he plans to use toward his degree.

Courses in the FAES Programs at NIH do not include laboratory work unless this activity is stated specifi cally in the course description.

The Offi ce of Personnel Management accepts certain course work in these programs for examination and qualifi cation purposes, on the same basis as that from full-time colleges and universities.

The Master of Public Health Program at The George Washington University recognizes certain courses within the FAES as substitutes for those offered in the MPH Program. Successful completion of those FAES courses allow students to apply for transfer of credit in the MPH Program. For further information about the MPH Program and currently eligible FAES courses, contact the Program offi ce at 202-994-2807.

Certifi cate in Technology Transfer Program FAES offers a Certifi cate in Technology Transfer Program that may be

completed in approximately 2 years by taking a sequence of courses and

a fi nal independent project, totaling 15 credit units. This program is open to anyone with a degree in science or engineering.

Transferring Certifi cate in Technology Transfer Courses toward Degrees Students who complete the Certifi cate in Technology Transfer Program at FAES can now transfer all 15 credits as a block to University of Maryland University Colleges (UMUC) Graduate School of Management and Technology. By completing only 21 more credits at UMUC, students can be awarded M.S. degrees (with a specialization in Technology Transfer) in one of the following areas:

Management The M.S. in Management is designed for students who are interested or have a background in a broad view of management and who may have little or no technical experience.

Technology Management The M.S. in Technology Management is designed for students who are interested in or have a background in working and managing in technology-based organizations.

Information Technology The M.S. in Information Technology is designed for students who are interested or have a background in information technology.

Biotechnology Studies The M.S. in Biotechnology is designed for students who are interested in learning about the science and ethics of biotechnology and the development and management of biotech businesses.

Upon completion of the M.S. degree from UMUC students can also earn the Master of Business Administration (MBA) degree by completing an additional 18 credits.

For further information please visit our website at www.faes.org.

Public Health Certifi cate ProgramFAES has in development a Public Health Certifi cate Program that will give professionals an overview of the fi ve core disciplines of public health, the core disciplines are epidemiology, biostatistics, environmental health sciences, health policy and management, and social and behavioral sciences. For further information on this program, please contact Dr. Stephen Marcus at [email protected]

RegistrationThe registration period is shown on the school calendar on the inside

front cover. Registration is not complete until the required fees have been paid. Registration for full year courses may be made for the entire year or for each semester separately; failure to reregister for the second semester could result in cancellation of that semester due to lack of enrollment.

Courses that are not on the 14 or 16 week semester schedule may have a different registration period.


Regulations and Procedures continued

Federal Training LegislationThe Foundation for Advanced Education in the Sciences, Inc. is a

nonfederal facility, within the defi nition of the Government Employees Training Act. Students should make arrangements with their training offi ces well in advance of registration week. Both the Authorization Form and our Registration Form must be submitted before registration is completed.

Financial AssistanceThe Gerald D. Aurbach Memorial Scholarship Fund (Guest

Researchers)/FAES Student Scholarship Fund (Postbacs and Graudate Students) provides a limited number of full or partial scholarships for students at the NIH with restricted income. The deadline for applications is the same as that for mail registration. Students interested in further information should call 301-496-7976. The Pierre Renault Memorial Scholarship Fund (sponsored by R/M Nardone Associates Inc.) provides fi nancial aid for qualifi ed Biotechnology students.

Course LoadStudents employed full-time may carry more than two courses only

with the permission of the Registrar.

FeesTuition is $145.00 per credit (except for certain courses, e.g.

biotechnology courses and 600 level courses. See schedule of classes for specifi c tuition charges). Students 65 years and over are eligible for 50% reduced tuition (for evening classes only).

Late Registration Fees: $10.00 late fee through the 4th week of the term. Registration is not possible after the 4th week. See calendar for dates.

Late Transfer Fee: There is a $3.00 late transfer fee for each course. See calendar for dates.

Withdrawal Fee: See paragraph on Withdrawals and Refunds.

Change of Status Fee: There is a $3.00 fee for a change from credit to audit or vice versa.

Transcript Fee: A fee of $5.00 per transcript will be charged for the fi rst 10 copies. Additional transcripts will be charged at $3.00 per copy, whenever multiple transcripts are requested at one time. A students record will be supplied on the regular Foundation form. Fee must accompany request.

Returned Check Fee: There will be a $25.00 fee for checks returned from the bank for any reason.

These are current fees and are subject to change.

Attendance at ClassesA student may not attend classes until registration has been

completed and fees due are paid. The student is expected to attend all class sessions, and even unavoidable absences do not relieve him/her from responsibility for work assigned during his/her absence.

Credit and GradesCredit: Persons having registered for credit must complete all of the

course work as required by the instructor.

Audit: An auditor must pay the same tuition and meet the same prerequisites as a credit student. He receives full privileges of class participation, if he chooses to exercise them. An auditor does not receive a grade; he receives only a mark of AUD.

Change from Credit or Audit: A student may request from the Registrar that his status in a course be changed from credit to audit, or vice versa, provided the request is submitted in writing and is accompanied by the $3.00 fee, no later than the end of the ninth week of the fall semester (see Calendar) and no later than the twelfth week of the semester Spring Semester*. Reporting a credit-audit change to the instructor does not constitute an offi cial change. Students not paying their own fees must submit written approval from their Administrative Offi ces when requesting a change. Grades: At the close of the semester, students taking courses for credit will receive written notice by mail of grades received. Upon request of the student or sponsor, grades will be forwarded to Personnel or University offi ce. The following grades are used:

AExcellent FFailure BGood I**Incomplete CAverage AUDAuditor DPassable

**The symbol I indicates that the required course work has not been completed, and may be changed to another grade if the student provides the instructor with a satisfactory explanation, and arranges to complete the work within a reasonable time.

Transcript of CreditStudents may obtain offi cial transcripts for their Personnel fi les or for

other purposes by requesting them in writing from the Registrar, with the payment of $5.00 per copy. No transcripts are issued during registration.

Withdrawals and RefundsApplication for withdrawal from any course in the FAES Programs at

NIH must be made in writing to the Registrar. A form for this purpose is available. To report the dropping of a course to an Instructor does not constitute an offi cial withdrawal. Permission to withdraw will not be given to a student who does not have a clear fi nancial record.

Refund of tuition fees will be granted only in cases of offi cial withdrawal according to the following schedule (based on calendar weeks):

From the time of registration through the second week of term: tuition less $20.00 per course.

During third and fourth weeks of term: 60% of total tuition will be refunded.

During fi fth and sixth weeks of term: 40% of total tuition will be refunded.

After the sixth week: no refund, and withdrawal is not possible.

Please note: Late fees are NOT refundable. Students who did not pay their own tuition will be responsible for paying the prorated portion of their tuition. For more information call the offi ce of the Registrar.

Refunds will be computed as of the date the application for withdrawal is received in the offi ce. In no case will tuition be reduced or refunded because of non-attendance at classes, or because of failure to consult with the instructor, in advance of registration, when so indicated in course description.

Because commitments for instruction and other arrangements are necessarily made at the beginning of the semester, no refunds for any reason can be made except in accordance with the above schedule.

The Foundation reserves the right to limit registration, cancel, terminate or postpone courses, or to combine classes; to change instructors; to make any changes deemed advisable in registration and in fees; and to require the withdrawal of any student at any time for such reasons as the Foundation deems suffi cient.


Courses of InstructionCourses sponsored by FAES as a part of its regularly established

curriculum are listed for 2011-2012 in the following pages by departments of instruction.

The words Fall and Spring show the semester in which the course is offered. ***The word Year indicates that the course is a two-semester course. The number of credits shows the value of the course in semester hours. One credit corresponds to 16 standard contact hours.

Courses numbered from 1 to 99 are intended for general adult education and may not be of college level.

Courses numbered from 100 to 199 are offered at lower college level (Freshman/Sophomore).

Courses numbered from 200 to 299 are intended for upper college level, requiring at least one college level prerequisite (Junior/Senior).

Courses numbered from 300 to 399 are for the senior and graduate levels and are open to both (Post-baccalaureate or graduate student).

Courses numbered from 400 to 499 are offered for graduate students and qualifi ed seniors.

Courses numbered from 500 and above are for graduate and professional students only; where indicated, they may be open to others who qualify.

Courses numbered 600 and above are continuing medical education courses designed primarily as preparation for Subspecialty Board Examinations.

Every effort has been made to describe the level and content of each course as accurately as possible. Should there be any uncertainty on the part of the student, it is his responsibility to consult the instructor for clarifi cation.

***First half given in the Fall semester.

Extension ProgramsIn efforts to enrich the intellectual environment for the NIH community,

to promote science and the welfare of scientists, the Foundation sponsors the following activities (for further information call 301-496-7976):

1. FAES MembershipMembership in the FAES is open to anyone with an interest in the promotion of scientifi c research and education. An annual fee of $15 entitles the member to vote for representation on the Board of Directors, to a 5% discount on Bookstore purchases, and use of the Social and Academic Center. (See paragraph 5).

2. Cultural ProgramsIn the belief that research and advanced education fl ourish best in a broad intellectual climate, the FAES encourages and sponsors nonscientifi c programs of interest to the NIH community. FAES sponsors the Manchester String Quartet for their monthly Monday noontime concerts at the NIH Masur Auditorium. Through gifts and purchases, the FAES has assembled a collection of graphics and paintings, which are on display in the cafeterias of the NIH. Other cultural activities are being planned for the future.

3. Awards, Memorial Funds, and Lecture SeriesThe FAES administers several special funds established to encourage scholarship, recognize scientifi c achievement, or contribute to human welfare. Currently, these include the Mathilde Solowey Award in the Neurosciences, the Yoshio Sato Memorial Fund, the Gordon Guroff Memorial Lecture Award, the John Doppman Memorial Fund, and the Astute Clinician Research Award. In addition, the FAES occasionally sponsors lectures in a broad range of cultural, historical and philosophical subjects, especially those of particular relevance to the NIH research community.

4. Visiting Scientist AssistanceThere are at the NIH a large number of Visiting Fellows, Guest Researchers and Special Volunteers, who are ineligible for Federal health insurance plans available to Federal Employees. To fi ll this gap, the FAES offers a health insurance plan which is open to persons who work for or at NIH in full-time positions. FAES also administers a medical evacuation and repatriation policy for scientists who have a J-1 visa and whose health insurance does not contain those benefi ts.

5. Social and Academic CenterIn 1975 the FAES acquired a large building at the corner of Cedar Lane and Old Georgetown Road and renovated it for use as a Social and Academic Center. The Center is available to FAES members on a rental basis for social or academic functions. In addition, FAES members may reserve the Center, free of charge, for lunchtime seminars.

Book ServiceBuilding 10, Room B1-L-101 Phone: 301-496-5272

The Foundation Bookstore is open to everyone, in or out of Government. Textbooks for courses are stocked, as well as supplementary textbooks recommended by the instructors. The bookstore stocks current scientifi c, medical and reference books, as well as those of a more popular scientifi c nature. Any books not in stock may be specially ordered.

The Foundation Bookstore is regularly open from 8:30 a.m. to 4:00 p.m. Monday-Friday. Extended hours are from 5:00-8:00 p.m. Monday-Thursday during the fi rst week of classes each semester and from 5:00-7:00 p.m. on Tuesday, September 6 and Tuesday January 17.

Foundation Bookstore hours8:30 a.m. 4:00 p.m., Monday-Friday

EXTENDED HOURSTuesday, September 6Tuesday, January 175:00 p.m. 7:00 p.m.

First week of classesMonday-Thursday

5:00 p.m. 8:00 p.m.

Please note: Courses that are not on the 14 or 16 week schedule follow a different deadline to change from credit to audit or vice-versa. Please contact the Registrars offi ce for date.


Biochemistry and BiophysicsMartin Gellert, Chairperson,

Leonid V. ChernomordikJoan CmarikDavid DaviesFouad FrancisPaul K. GoldsmithMitchell Ho

BIOC 301 Fall, 3 creditsFall, 3 credits Biochemistry I Mitchell Ho* Gail Seabold Jean Tiong John E. Weldon

BIOC 301and BIOC 302 are comprehensive survey of biochemistry at the graduate level. BIOC 301 will cover structure and function of biological macromolecules, as well as topics on metabolic pathways including glycolysis, citric acid cycle and oxidative phosphorylation. It will also cover the current methods used in biochemistry and medicine.

Textbook: Lehninger Principles of Biochemistry, 5th edition.

Course website: http://tech.groups.yahoo.com/group/bioc300/

Registration limited to 50 students.

Prerequisite: Organic Chemistry or consent of the Instructor.

BIOC 302 Spring, 3 credits Spring, 3 credits Biochemistry II Mitchell Ho* Gail Seabold Jean Tiong John E. Weldon

BIOC 302 is a continuation of BIOC 301. It will cover metabolism and biosynthesis of biological macromolecules such as glycogen, fatty acid, amino acid and nucleotide. It will cover trends applicable to medical sciences such as the immune system and drug development.

PLEASE NOTE: THE ABOVE NEW COURSE NUMBERS AND DESCRIPTIONS REPLACE BIOC 300 Introductory Biochemistry.

BIOC 315 Spring, 2 creditsSpring, 2 creditsPProtein Biochemistry Paul K. Goldsmith

The course materials cover concepts, methods, and practical procedures for the development of analytical reagents for the isolation, characterization and quantitative analysis of proteins. The course is designed for researchers who have not had great experience with proteins. The lectures will begin with analytical assay theory. Protein determination methods will be discussed. The lectures will then focus on the production of peptide specifi c antibodies for use as analytical reagents. Methods such as electrophoresis, western blotting, low and high pressure chromatography, immunoprecipitation and ELISA will then be discussed. Protein derivitization, protocols for mass spec analysis will also be presented in the lectures.

There are no exams in the course. Each student will be required to evaluate and present a paper to the class which utilizes one of the techniques that have been

Henry LevinGail SeaboldJean TiongRoberto WeigertJohn E. WeldonWei Yang

presented in the lectures. At the end of the course, most students will have a framework for using a DNA sequence to generate antibodies for the isolation and characterization of the gene product and its quantization in tissues or cells.

BIOC 316 Spring, 1 credit (8 weeks)Spring, 1 credit (8 weeks)Structure and Function of Biological Macromolecules Wei Yang* David Davies

Selected topics chosen from the recent advances in structural biology with the general aim of relating structure to function. Starting from basic principles of protein and nucleic acid structure, we shall present the latest results in increasing order of complexity. Topics will be selected from simple enzyme mechanisms to complex biological processes including replication, transcription, translation, signal transduction, HIV viral infection and immune response. These topics will expose students to chromosome decoding, ribosome and protein synthesis, membrane proteins, ligand-receptor interactions, and structure-based drug design. Students will also be exposed to the methods used to determine three-dimensional macromolecular structures, e.g. X-ray crystallography, NMR and electron microscopy.

Prerequisite: A basic course in biochemistry or its equivalent.Text book: Biochemistry by Voet & Voet or Biochemistry by Berg, Tymoczko and Stryer

BIOC 433 SSpring, 2 creditspring, 2 creditsCurrent Methodology in Nucleic Acid Structure and Function Research

This course will focus on current methods used to examine the organization and function of genetic information, as well as the regulation of gene expression. The emphasis will be on gaining an understanding of basic concepts and methodology. Recent advances in molecular biology techniques and clinical applications will be introduced. Topics to be covered include restriction enzyme analysis, molecular cloning, library construction, DNA sequencing and footprinting analysis, DNA mutagenesis, microarray analysis of gene expression, and construction of transgenic/knockout mice.

Prerequisite: BIOC 300 or equivalent.

BIOC 505 Spring, 2 creditsSpring, 2 creditsCell Membranes and IntracellularTraffi cking Leonid V. Chernomordik* Roberto Weigert

The course will consider modern concepts relating to the structure and function of cell membranes. Starting from the physical properties of membranes, the course will examine membrane biogenesis, membrane dynamics, and intracellular traffi cking. Examples will be drawn from specifi c membrane functions in the various organelles. Topics will include nuclear transport, ER to golgi transport, endocytosis, carbohydrate and lipid traffi cking.

Minimum of 15 students must register for course to be held.

Prerequisite: CHEM 220 and BIOC 300 or equivalent.


BIOC 527 Fall, 3 creditsFall, 3 creditsBiochemistry and Metabolism of Lipids Fouad Francis

The objectives of this course are to address the in vivo and in vitro biochemical, physiological and clinical characteristics of lipids and lipoproteins. The fi rst portion of the course will involve topics that include properties of lipids, lipid markers of subcellular membranes, and lipid, prostaglandins and lipoprotein metabolism. The second portion of the course will consider the current concepts relating to specifi c lipid functions, lipid-protein interaction, and disorders of lipid metabolism.

Prerequisite: BIOC 300 or equivalent, and permission of instructor.

BIOC 533 Spring, 2 credits, Alternate Years 2012Spring, 2 credits, Alternate Years 2012The Molecular and Cellular Basis of Intercellular Communication Joan Cmarik

The objective of this course is to expose students to current knowledge and experimental approaches in the fi eld of signal transduction as presented by invited expert lecturers who are at the leading edge in researching their respective systems. Emphasis will be given to molecular mechanisms and applications to human disease states. Among the signaling molecules to be considered are growth factors, hormones, cytokines, transmembrane receptors, G proteins, kinases and phosphatases, soluble intracellular messengers, ion channels, trans-acting factors and calcium-binding proteins.

Prerequisite: M.D., Ph.D., prior course work (e.g. MEDI 211, or BIOC 301/302), or extensive experience in the fi eld.

BIOC 539 Spring, 2 credits, Alternate Years, 2013Spring, 2 credits, Alternate Years, 2013Recent Discoveries in Molecular Biology Henry Levin

The objective of this postgraduate course is to present late breaking discoveries of genetic, epigenetic, cellular, and developmental mechanisms that underlie the fundamental processes of biology. The presentations will focus on discoveries that reveal molecular understanding of key processes. Speakers will present introductory material and explain how recent results impact current assumptions. Topics discusses will include a variety f biological systems and processes. Topics include: Transcriptional activation, RNAi mediated silencing, the function of small noncoding RNAs, the dynamics of chromatin structure, gene shuffl ing in the immune system, transposable elements, nuclear architecture, molecular control of early development, stem cells, cell reprogramming, and development and processing of the visual system. Each lecture will be given by a different guest speaker chosen from among the leading research scientists at NIH. Reading material will be made available one week prior to each lecture.

All students should have a college level understanding of basic biochemistry, molecular biology and genetics.

BIOF 312Introduction to Perl(See page 8)

BIOF 411Introduction to Genomics(See page 8)

BIOF 429Practical Bioinformatics(See page 8)

BIOF 518Theoretical and Applied Bioinformatics(See page 9)

BIOF 537Computational Biology(See page 9)

BIOF 538Biological Databases Design(See page 9)


Benjamin Busby, Chairperson

Carlo ArtieriMedha BhagwatColleen BollinBenjamin BusbyJoshua L. CherryAaron GussmanYang HuangRezarta IslamajYoo-Ah Kim

_______________________________________

New BIOF 309 Fall, 1 credit (7 weeks) Fall, 1 credit (7 weeks) Introduction to Python Joshua L. Cherry

This course will introduce students to the Python programming language and to general principles of computer programming. Topics will include fundamental elements of programming such as variables, control structures, functions, and data types; principles of good programming design and practice; introductions to advanced topics such as algorithmic complexity, recursion, and object-oriented programming; and the mechanics of using the Python interpreter interactively and for executing programs. Many examples and exercises will be oriented toward computational biology, but the course will aim to provide a fi rm foundation in general programming.

Students must bring their own laptops to class and will be required to install the Python interpreter on their laptops. This course is intended for students with no prior computer programming experience.

Registration is limited to 15 students.

New BIOF 312 Summer, 2 credits (2012)Summer, 2 credits (2012)Introduction to Perl Colleen Bollin

This course will introduce students to the Perl programming language and to general principles of computer programming. Class exercises will focus on using Perl to parse, analyze, and process large bioinformatics data sets, especially FASTA sequence data and BLAST results, as well as .bed fi les derived from RNAseq data. Topics will include fundamental elements of programming such as variables, control structures, functions; elements of the Perl programming language used for as regular expressions and reading and writing to fi les; basic program design techniques; and the use of thePerl debugger.

Students must bring their own laptops to class and will be required to install the Perl interpreter on their laptops. This course is intended for students with no prior computerprogramming experience.


Tuesdays and Thursdays* in August, 2012 5:30-7:30

(*there will be no Thursday class on the last week)

Bioinformatics

David KristensenJacqueline MajorJohn MaloneAurelie NeveolJohn PepperPere PuigboJoseph RyanKai WangSijung Yun

New BIOF 411 Fall, 3 creditsFall, 3 creditsIntroduction to Genomics Carlo Artieri Ben Busby John Malone*

The genome contains the blueprint from which cells, tissues, organs, and organisms are built. Recently, advances in technology have allowed rapid and cost-effective gathering of genomic sequences from cells, individuals, populations, and different species. In a relatively short time, these advances have birthed the fi eld of genomics. While the building blocks of DNA consist of just 4 nucleotide types, the millions or even billions of nucleotides contained within a genome make it a challenge to understand the complex information it contains.

This course provides a foundation for understanding the biology of the genome. Topics covered will include DNA sequencing, genome analysis, the structure and diversity of genome structure, evolutionary analysis of genome biology, transcriptome and proteomic analysis, systems genomics, and the relevance of genomics to medicine. Students will present research papers relevant to weekly topics and conduct exercises that test concepts in genomics.


BIOF 429 Fall, 2 credits (10 weeks)Fall, 2 credits (10 weeks)Practical Bioinformatics Medha Bhagwat

This course describes practical applications of publicly available bioinformatics resources for analysis of geneomic, expression and proteomic data from a number of organisms. Emphasis will be placed on practical step-by-step procedures, although relevant theory will also be given in order to use the resources effectively. The course consists of ten classes, some of these are resource based such as BLAST or Genome Browsers and some are problem based such as Making Sense of DNA and Protein Sequences. Each class uses a paired problems approach in which the fi rst of two similar problems or problem sets is solved by the instructor, while the students watch; in the second half of the class, the students tackle the second problem, or set of problems at their computers. The class topics are: How to access the bioinformatics data; Sequence Analysis: Making sense of DNA and Protein Sequences; Gene Resources: From Transcription Factor Binding Sites to Function; Analysis of Expression Data; Protein Structural Analysis: Binding Sites to Distant Homologs; Eukaryotic Genome Browsers; Microbial Genome Analysis; Identifi cation of Disease Genes; Correlation of Disease Genes to Phenotypes.

Prerequisite: A solid understanding in molecular biology.

The practical approach of this course is complimentary to both the theoretical/applied material covered in BIOL 518 (spring) and the Theoretical Genomics (BIOF 411) offered concurrently.



New BIOF 502 Spring, 1 credit, (8 weeks)Spring, 1 credit, (8 weeks)Medical Genomics for Clinicians and Researchers Medha Bhagwat* Ben Busby Jacqueline Major John Pepper

This two-part course will begin with an introduction to basic concepts of ge-nomics and informatics as they may be applied in the clinic (fi rst eight weeks BIOF 502), and continue with an intensive treatment of data acquisition and analysis relevant to most of these topics (fi nal eight weeks BIOF 552).

Introductory sessions will provide a condensed review of the biological foundations of bioinformatics and common resources in the fi eld. Following that, topics covered in the fi rst half of the course will be epidemiology, population genomics (with a focus on the 1000- and 100,000-genomes projects), genotype phenotype relationships, evolution of cancer, toxico(pharmaco)genomics, immunogenomics, bacterial and viral genomes, clinical decision support, and ethics of medical genomics.


BIOF 518 Spring, 3 creditsSpring, 3 creditsTheoretical and Applied Bioinformatics Ben Busby Rezarta Islamaj Yoo-ah Kim Aurelie Neveol Pere Puigbo* Joseph Ryan Sijung Yun

The objective of this course is to give students an introduction into the theory and practice of a wide range of bioinformatic techniques and applications, enabling them to use these tools in their own research. This course will be divided into four modules: acquisition and analysis of sequence datasets, analysis of genomic datasets from an evolutionary perspective, network analysis of genomic and systems datasets (including natural language processing, and analysis and prediction of protein structure. Three of the four sessions in each module will be divided roughly 50 percent theoretical lecture and 50 percent learning to use relevant computational tools. The final session of each module will be split between a journal club, and commencement of work on a project assigned for each module. By the end of the course, students should be able to acquire many types of sequence data, identify similar genes, domains and motifs, identify gene transfer events and alternative splicing, generate and analyze transcriptional and gene expression networks, analyze proteomic data and make a prediction of peptide structure from primary sequence.

Prerequisite: A solid understanding of biology, computer science or mathematics or BIOL 429.

Registration is limited to 15 students, more may be accepted with permission of instructor.

BIOF 537 Fall, 3 creditsFall, 3 creditsComputational Biology Colleen Bollin Ben Busby* Aaron Gussman Yang Huang

Web based bioinformatic tools are useful for analysis of individual molecules or very small datasets, but do not give researchers the accuracy and fl exibility of manipulating raw datasets required for study of biological systems. With this in mind, we have designed a 16 week course where students will analyze large biological datasets. Experimental design and biological project integration will be a major theme of the course. After meeting with Dr. Busby to design an individual biologically oriented

research project before the class begins, students will acquire and organize raw datasets (shell scripting) and annotations into databases (mySql); output data from databases as well as multiple web hits into fi les, and do higher order analysis (such as tree building) with perl; followed by Bayesian, Boolean, and multifactorial analysis of datasets using R, and use MATLAB as a way to describe/evaluate trends originating from large datasets.

Prerequisites: This will be an intense and challenging course. Please take it only if you have some basic experience with bioinformatics (or have taken Biol 518).

Students will be expected to have their own laptop computers preferably pre-equipped with a way to run linux. If that is not possible, special arrangements must be made with the instructors before the fi rst class. When registering for the course, please submit a non-governmental email address to the registrar.

New BIOF 538 Spring, 3 creditsSpring, 3 creditsBiological Databases Design Medha Bhagwat Ben Busby Aaron Gussman* Kai Wang

This course will introduce students to a broad range of techniques and tools useful for the design and management of innovative biological databases.

Introductory sessions will provide a condensed review of the biological foundations of bioinformatics and common resources in the fi eld. Subsequent classes will cover a mix of technical issues as well as non-computational skills. Technical issues will include hardware requirements, data capture using ontologies, and database optimization and effi ciency. Non-computational classes will cover topics such as requirements analysis and user support. Later classes will explore newer technologies in boinformatics, such as virtualization and cloud computing, GIS, and non-relational databases. Students will explore the practical application of these technologies to bioinformatics and computational biology.Audience: The course is intended for students familiar with programming and basic database design who would like to improve their understanding of technologies useful for developing bioinformatics databases. Students will be expected to participate in a class blog.

Prerequisites: Course participation is limited to students with previous experience creating and using databases in a UNIX/LINUX environment, or by instructor permission (completion of **Computational Biology 537** is also an acceptable prerequisite). Students are expected to bring a laptop to class and to install an Ubuntu Virtual Machine on said laptop.



Bioinformatics continued

New BIOF 552 Spring, 1 credit (8 weeks) Spring, 1 credit (8 weeks) Medical Genomics for Cliniciansand Researchers Medha Bhagwat* Ben Busby Jacqueline Major John Pepper

This is the second half of the course (BIOF 502 fi rst half) and will include a hands-on treatment of GWAS, expression and proteomics, current mathematical issues in epidemiology, comparative analysis of microbial and viral genomes, and systems biology.

Audience: The fi rst half of the course (BIOF 502) is intended for clinicians and researchers interested in medical genomics. The second half of the course is intended for students familiar with programming who would like to learn how to query and analyze data from large medically relevant datasets. Students will be expected to participate in class surveys, projects and journal article presentations.

Prerequisites: A basic understanding of genetics would be very helpful in the fi rst half of the course. For the second half of the course, participation is limited to students with previous experience parsing large fl at fi les, or by instructor permission (completion of **Computational Biology 537** is also an acceptable prerequisite). For the second part of the course, students are expected to bring a laptop to class. Students taking the second half of the course will likely benefi t greatly from taking the fi rst half, and therefore are required to take it, except in exceptional circumstances, with permission of instructor.

Registration is limited to 20 students ( fi rst half is BIOF 502).

Biology and GeneticsDebrorah Hinton, Chairperson

Robert S. AdelsteinMawadda Al-NaeeliSankar AdhyaSheri BaleBarbara B. BieseckerLeslie G. BieseckerAndres BuonannoRuth ChiaLijin DongMonique Dubois-DalcqMichael G. EspeyFanette FontaineClaudia GebertSuzanne Hart

BIOL 101 Fall, 2 credits, Alternate Years, 2012Fall, 2 credits, Alternate Years, 2012Introductory Biology Vicente Notario

Introductory Biology will be conducted at the level of a fi rst year college course. It is intended to provide a broad understanding of biological principles suffi cient to prepare the beginning student for more advanced courses in biology and molecular biology. The focus of the course emphasizes molecular and classical biology.

BIOL 102 Spring, 2 creditsSpring, 2 creditsIntroductory Molecular Biology-Genetics Ruth Chia Fanette Fontaine Erik Read*

Biology 102 is designed as an introduction to molecular and genetic aspects of biology. Topics include Mendelian genetics, prokaryotic and eukaryotic molecular genetics, and gene cloning.

Prerequisites: Biology 101 or college level basic biology.

BIOL 262 Fall, 2 credits, 2012Fall, 2 credits, 2012Molecular Approaches to Studying Diseases Philip Wang

This lecture discussion based course is designed to help students gain an appreciation of techniques including molecular, cellular, biochemical, transgenic animal models, and imaging techniques. Students will learn a historical perspective of technique development, discuss applications and explore recent advances using these specifi c approaches. Diseases that will be addressed include both monogenic and polygenic diseases of complex origin.

Prerequisites: Undergraduate Biology and Chemistry.

Miles HerkenhamDeborah HintonSusan MackemAnne MadeoMaximillan MuenkeYosuke MukoyamaConstance T. NoguchiVicente NotarioErik ReadPhilip WangMatthew WenhamXuehua XuCarlos A. Zarate, Jr

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BIOL 317 Fall, 2 creditsFall, 2 creditsMolecular and Cell Biology Mawadda Al-Naeeli Lijin Dong Michael G. Espey* Matt Wenham Xuehua Xu

This course offers a broad overview of cell biology, exploring the molecular basis of cellular structure and function. Sample topics include cellular metabolism, organelle structure and function, gene expression, cell signaling, and the cell cycle. The course will also address experimental approaches to studying cell biology and the pathological consequences of abnormal cellular function. Textbook content will be supplemented with recent literature.

There is a suggested prerequisite of biology 101 or one semester of college-level biology.

BIOL 319 Stem Cells and Their Niches

This course introduces students to stem cells and their associated niches. Topics include types of stem cell niches and signaling pathways used. The different types of stem cells covered will include embryonic, hematopoietic, mesenchymal, germline, epidermal and neural stem cells. This course will cover techniques used to study stem cells in the laboratory, applications of stem cells and potential for the treatment of diseases.

BIOL 325 Fall, 3 creditsFall, 3 creditsBasic Human Neuroanatomy Miles Herkenham

This course will review the major structures and neuronal pathways of the human brain starting with those found in the spinal cord and moving to medulla, pons, cerebellum, midbrain, hypothalamus and thalamus, and fi nishing with the limbic system, basal ganglia, hippocampus and cerebral cortex. Brain development will be used as an aid in appreciation of structures and connectivity. A functional neuroanatomical description will be given to sensory (somatic and autonomic), motor, association, extrapyramidal, and limbic systems. Some consideration will be given to the relationship between cortical areas defi ned on the basis of cytoarchitectonics and areas of the human brain as parceled out by brain imaging techniques. The major differences in the anatomy of brains of humans as compared to other species more commonly used in research settings will be covered. The goal of this course is to educate those doing animal and human brain research who want to become familiar with basic neuroanatomy.

Prerequisite: BIOL 101 or equivalent.

BIOL 327 Fall, 2 credits, Alternate Years, 2012 Fall, 2 credits, Alternate Years, 2012 Modern Developmental Biology Robert S. Adelstein* Susan Mackem Yosuke Mukoyama Constance T. Noguchi

This course will survey the fundamentals as well as recent progress in vertebrate development including stem cell biology. The fi rst half of each class will consist of a lecture based on a relevant chapter in the latest edition of Scott Gilberts textbook, Developmental Biology. The second half of each class will be devoted to presentation and discussion of important articles from the current literature, based on the lecture. The emphasis will be on the mechanisms underlying vertebrate development.

Course objective: After attending this course, the participant should be able to discuss the developmental processes that can be affected by genetic mutations giving rise to genetic diseases.

Prerequisite: Biology 101 or college level biology.

BIOL 338 Fall & Spring, 1 credit each semester (8 weeks)Fall & Spring, 1 credit each semester (8 weeks)Epigenetics and Medical Disorders Claudia Gebert

Aberrant regulation of the epigenome has been associated with the onset of many human diseases including development disorders and cancer. The objective of this course are to give students an overview of the most common epigenetic mechanisms known to date and how, if gone awry, they relate to the pathogenesis of a particular disease. Each class will focus on a human medical disorder and discuss the epigenetic mechanisms involved in the pathogenesis of this disorder as well as diagnostic tools and available treatment options. By the end of the course, students can expect to have a basic understanding of DNA methylation, histone modifi cations, genomic imprinting, and X chromosome inactivation, and disorders associated with aberrations in epigenetic regulatory mechanisms.

Prerequisites: Prior particular knowledge on epigenetics is not required to attend this course, however, introductory biology knowledge is desired.


BIOL 435 Fall, 3 credits, Alternate Years Fall, 3 credits, Alternate Years Current Trends in the Neurobiology of Mental Illness Carlos A. Zarate, Jr.

The objective of this graduate level course is to provide an overview to the biological basis of major neuropsychiatric disorders, as well as to explore the emerging methodologies (both basic sciences and clinical) being utilized in the study of these brain disorders. A group of leading scientists and clinicians has been recruited to provide lectures in their areas of expertise, and each is responsible for weekly course objectives. Disorders to be covered include bipolar disorder, major depression, anxiety disorders, schizophrenia, childhood onset psychiatric disorders, and substance dependence. Speakers will discuss the evidence supporting current theories related to each disorder, with particular emphasis on the limitations of current methodologies, the prospects for the greatest advances, and their individual contributions to the fi eld. Additionally, specifi c lectures will focus on methodologies that are rapidly having a major impact on neuroscience research, as well as advancing our understanding of neural function and disease mechanisms. The methodologies to be discussed will include positron imaging tomography, magnetic resonance imaging (functional and structural), animal


models, biochemical techniques, genetic and epidemiological analysis, and statistical modeling used in the study of these disorders. Students enrolled in the course will be expected to develop a broad knowledge of the scope, impact, and biological basis of mental illness, an understanding of the advanced techniques used to study these illnesses, and familiarity with recent and groundbreaking novel research in the fi eld.

Prerequisites: A familiarity with college level neurobiology, biochemistry, and genetics.


BIOL 504 Spring, 2 credits, Alternate Years, 2012Spring, 2 credits, Alternate Years, 2012Developmental and Synaptic Neuroplasticity Andres Buonanno* Monique Dubois-Dalcq

The objectives of this course is to present an overview of the distinct cellular and molecular mechanisms governing the unique capacity of the brain to adapt to an ever changing environment during development, and in the adult. The course will focus on how embryonic and adult neural cells can adopt distinct phenotypes during development, and on how activity-dependent mechanisms modulate neurotransmission and synaptic strength. The sixteenweek course will be taught by NIH scientists working on cutting edge research on developmental and synaptic plasticity, who will discuss the current themes and multi-disciplinary approaches used to investigate these topics. Four classes will be dedicated to student presentations and open discussions. The specifi c topics that will be covered include: neuronal development and determination, neural stem cells and adult progenitors, synapse morphology and ultrastructure, mechanisms regulating neurotransmitter receptor traffi cking, synaptic plasticity at excitatory and inhibitory synapses, regulation of presynaptic release, and experience-dependent development of sensory systems.

Prerequisites: Familiarity with college or graduate level neuroscience.


GENE 415 Spring, 2 credits, Alternate Years, 2013Spring, 2 credits, Alternate Years, 2013Control of Gene Expression Sankar Adhya* Deborah Hinton

This course examines the ways in which cells regulate gene expression using model systems, including E.coli and bacteriophages. The course emphasizes the genetic and biochemical approaches that are used to study regulation. Mechanisms of transcriptional, translational, and post-translational control will be included, and comparisons made between mechanisms used in prokaryotes and eukaryotes. The interaction of regulatory mechanisms into complex regulatory circuits will be discussed, using both classic examples and selected topics from the latest lectures.

Prerequisites: Microbial genetics and biochemistry.

GENE 500 Year, 2 credits each semesterYear, 2 credits each semesterIntroduction to Medical Genetics Suzanne Hart* Maximillian Muenke

The objective of this two-semester course is to provide an introduction to clinical and human genetics for fellows and genetic counseling students who are preparing for subspecialty examinations of the American Board of Medical Genetics and for others who wish to learn about the expanding role of genetics in medicine. The fi rst semester will introduce basic concepts of genetics, cytogenetics and molecular genetics. The second semester will include presentations on clinical topics emphasizing the diagnosis and management of patients with genetic disorders. Topics to be covered in the fall semester include Mendelian and non-Mendelian inheritance, congenital malformations, dysmorphology, teratology, storage disorders and other inborn errors of metabolism, mitosis, meiosis, structural abnormalities and segregation, X chromosome inactivation, new advances in cytogenetic technology including FISH, the molecular organization, regulation and manipulation of genes. In the Spring semester, topics will include genetic polymorphism and disease susceptibility, DNA diagnosis, prenatal and pre-implantation diagnosis, multifactorial inheritance, population genetics, linkage analysis, oncogenes, tumor suppressor genes, the molecular basis of breast and colon cancer and relevant counseling issues, genetic disorders of specifi c organ systems, newborn screening, gene therapy, the consumers view of genetic services and ethics and genetic technology. This course should impart basic principles of genetics as applied to medicine and provide an approach to a patient with a suspected genetic disorder.

Audience: Fellows and genetic counseling students who are preparing for subspecialty examinations of the American Board of Medical Genetics and for others who wish to learn about the expanding role of genetics in medicine.

Course objective: After attending this course the participant should be able to describe current advances in human genetics and manifestation in clinical disease and outline the current clinical practice for diagnosis and treatment of patients with genetic disorders.

Prerequisites: Graduate level training or experience in the biomedical sciences or consent of the course coordinator.

GENE 505 Fall, 1 credit, Alternate Years Fall, 1 credit, Alternate YearsEmbryology, Developmental Biology and Human MalformationsTuition: $145 Leslie G. Biesecker

Class will meet Wednesday 5:30pm -6:30pm

The objective of this course is to familiarize the students with modern developmental biology and the use of this knowledge to understand common human malformations. The course will begin with lectures on the methodology and model systems of developmental biology, a review of preimplantation development and gastrulation, and embryogenesis/organogenesis. Subsequent lectures will focus on the development of several organ systems (e.g. central nervous system, cardiovascular, limb, urogenital, gut/respiratory, and craniofacial). These six systems will be covered in two lectures each. New this year will be several lectures that delve into several developmental genetic pathways in detail. A closing lecture on developmental pleiotropy will round out the course.

Prerequisite: Permission of the course coordinator.

Biology and Genetics continued


GENE 510 Fall and Spring, 4 credits each semesterFall and Spring, 4 credits each semester Genetic Counseling: ProfessionalTopics Seminar Barbara B. Biesecker* Anne MadeoTuition $580 per semester

Class will meet Fridays 2:30 - 4:30 p.m.

The objective of this course is to address the psychological, clinical, social, and ethical issues in genetic counseling. This is a required course for the graduate students enrolled in the JHU/NHGRI Genetic Counseling Training Program. It is also an opportunity for college graduates interested in genetic counseling to learn about theoretical and practical aspects of the profession. This class offers a dynamic forum for discussion focusing on genetics counseling research, policy and education and their impact on clinical practice. A diverse group of professionals present topics well suited for class discussions. Student led case presentations highlight the psychological, social and ethical issues in genetic counseling. Clients who have had personal experiences with a genetic condition or risk expose students to a variety of attitudes, reactions and experiences. Students enrolled in related graduate programs are encouraged to enroll to maximize the opportunity for exchange among disciplines.

Prerequisite: Permission of one of the instructors.

GENE 514 Spring, 1 creditSpring, 1 creditCurrent Concepts in Clinical Molecular Genetics and Molecular Diagnostics Suzanne HartTuition: $145.00

Class will meet Thursdays 5:30pm-6:30pm

The objective of this course is to provide a review of molecular diagnosis of common hereditary or neoplastic disorders for which DNA based diagnosis is now in routine use. Topics include FGFR3 disorders, fetal blood typing, thrombophilias, hemochromatosis, fragile X syndrome, polyglutamine disorders, hereditary breast cancers, Charcot Marie Tooth and spinal muscular atrophy, PraderWilli and Angelman syndromes, mitochondrial diseases, Duchenne and Becker muscular dystrophy, cystic fi brosis, and Smith-Lemli-Opitz Syndrome. There will also be sessions on genetic risk prediction using linkage and Bayesian analysis as well as a class on DNA forensics and paternity testing. The course is designed as part of the required curriculum for Clinical Genetics residents and fellows preparing for the Clinical Molecular Genetics boards given by the American Board of Medical Genetics.

Prerequisite: GENE 500 and permission of the instructor.

GENE 644 Spring, 2 credits, Alternate Years, 2013 Spring, 2 credits, Alternate Years, 2013A Review of Medical Genetics Sherri Bale and guest lecturersTuition: $580

Class will meet Wednesdays 5:30pm-7:30pm

The objective of this course is to provide a review for candidates for the American Board of Medical Genetics Subspecialty examinations (clinical genetics, molecular genetics, biochemical genetics, cytogenetics, and genetic counseling). Topics to be covered include statistical and mathematical subjects in clinical genetics and population genetics, clinical cytogenetics, dysmorphology, ophthalmologic genetics, and general treatment and management of genetic diseases.

Prerequisite: Boar

Documents

2011-12 Faes Grad School Catalog