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Graduate School

 


Genomics and Bioinformatics

Program Director

Dr. Phillip McClean

Program Location

Plant Sciences, Loftsgard Hall

Telephone Number

 (701) 231-8443

Degrees Offered

Ph.D. M.S.

Application Deadline

International applications are due May 1 for fall semester and August 1 for spring and summer semesters. Domestic applicants should apply at least one month prior to the start of classes.

English Proficiency Requirements

TOEFL ibT 71
IELTS 6

 

Program Description


Genomics and Bioinformatics is an interdisciplinary graduate program that involves faculty from nine departments. Advanced research and study will focus on either functional or computation genomics. The program is designed to provide both M.S. and Ph.D. students the necessary skills and intellectual background to work cooperatively with others in a research area that takes a systems-wide approach to the study of the organization and expression of the many genes and their products expressed in an organism. Exposure to modern techniques and instrumentation will prepare the student for success in both industrial and academic careers.

Admission Requirements


It is the intent of the program to admit students in either of two tracks. The Functional Genomics Track will be for students interested in the generation and application of genomic information. The Computational Bioinformatics Track is intended for students interested in using computer science and statistical approaches to analyze large amounts of genomic data.

The Genomics graduate program is open to qualified graduates of universities of recognized standing. The Graduate School minimum for the TOEFL examination applies. In addition, the following are the requirements to be admitted with full standing.

Functional Genomics Track: a B.S. degree with courses in genetics, physiology, biochemistry; an upper-division statistics class; an introductory biology class emphasizing molecular biology; and minimum undergraduate GPA is 3.0.

Computational Bioinformatics Track: a B.S. degree with courses in calculus, comparative computer languages, data structures, an upper-division statistics class, an introductory biology class emphasizing molecular biology, and minimum undergraduate GPA is 3.0

Students can be accepted conditionally into either track without meeting the course or GPA requirements, but will be required to meet those requirements while in residency. 

Degree Requirements


Adviser and Graduate Committee
During the first year, the student will select an adviser, form a graduate committee, and submit the Plan of Study to the Graduate School. The committee must include the student's major adviser, at least one other faculty member of the genomics program, and the Graduate School appointee. For Ph.D. students only, one member of the committee must be from outside the student's home college.

Core Courses

  • PLSC 611 Genomics 3 cr
  • CSCI/MATH/STAT 732 Bioinformatics 3 cr
  • PLSC 721/BIOC 721 Genomic Techniques 2 cr
  • 796 Current Topics in Genomics 2 [2 x 1 cr. (MS)] or 3 [3 x 1 cr. (Ph.D.)] cr
  • 790 Graduate Seminar 1 (M.S.) or 2 (Ph.D.) cr

Ph.D. Program

Functional Genomics Option

  • Ph. D. Core Courses 13 cr
  • Support Courses (required unless on incoming transcript) BIOL 659 Evolution 3 cr PLSC 631 Intermediate Genetics 3 cr STAT 726 Applied Regression and Analysis of Variance 3 cr
  • Electives minimum of 15 credits from the Physiology, Gene Expression, Genetics and Computational Elective areas; one course from each of the Physiology, Gene Expression, Genetics elective areas is required
  • Research to 90 credits total (NOTE: a minimum of 15 didactic credits must be 700-level courses)

Bioinformatics Option

  • Ph. D. Core Courses 13 cr
  • Support Courses (required unless on incoming transcript) CSCI 668 Database System Design 3 cr PLSC 631 Intermediate Genetics 3 cr STAT 661 Applied Regression Models 3 cr CSCI 796 Computational Methods in Bioinformatics 3 cr
  • Electives - minimum of 15 credits; a minimum of three courses must be from the Computational area and a minimum of one course must be from either the Physiology, Gene Expression or Genetics Elective areas
  • Research to 90 credits total (NOTE: a minimum of 15 didactic credits must be 700-level courses)

Elective Areas

Physiology
ARSC 728 Advanced Reproductive Biology 3 cr
BIOC 718 Metabolic Regulation 3 cr
BOT 780 Plant Metabolism and Stress Physiology 3 cr
BOT 784 Photobiology 3 cr
MICR 670 Basic Immunology 3 cr
MICR 680 Bacterial Physiology 3 cr
MICR 781 Advanced Bacterial Physiology 3 cr
PPTH 751 Physiology of Plant Disease 3 cr
ZOO 660 Animal Physiology 4 cr
ZOO 664 Endocrinology 3 cr
ZOO 682 Developmental Biology 3 cr
ZOO 764 Neuroendocrine and Endocrine Systems 3 cr
ZOO 766 Neurophysiology 3 cr

Gene Expression
BIOC 719 Molecular Biology of Gene Expression and Regulation 3 cr
BOT/ZOOL 720 Advanced Cell Biology 3cr
MICR 775 Molecular Virology 3 cr
PLSC 731 Plant Molecular Genetics 3 cr 

Genetics
BIOL 659 Evolution 3 cr (required for Functional Genomics Ph.D. Option)
BIOL 796 Molecular Evolution and Phylogenetics 3 cr
MICR 682 Bacterial Genetics and Phage 2 cr
MICR 783 Adv. Bacterial Genetics and Phage 2 cr
PLSC 631 Intermediate Genetics 3 cr (required for Functional Genomics Option)
PLSC 741 Cytogenetics 4 cr
PLSC 751 Advanced Genetics 3 cr
PLSC 780 Population Genetics 2 cr
PLSC 781 Quantitative Genetics 2 cr
PPTH 759 Host-Parasite Genetics 3 cr 

Computational
CSCI 724 Survey of Artificial Intelligence 3 cr
CSCI 759 Computational Methods in Bioinformatics 3 cr
CSCI 760 Dynamic Programming 3 cr
CSCI 765 Introduction to Database Systems 3 cr
CSCI 783 Data Mining 3 cr
CSCI 796 Knowledge Discovery in Biological Data 3 cr
CSCI 796 Signal Processing and Analysis in Bioinformatics 3 cr
MATH 635 Mathematical Models of Biological Processes 3 cr
MATH 647 Molecular Topology 3 cr
STAT 650 Stochastic Processes 3 cr
STAT 651 Bayesian Statistical Decision Theory 3 cr
STAT 661 Applied Regression Models 3 cr (required for Bioinformatics Ph.D. option)
STAT 731 Biostatistics 3 cr
STAT 764 Multivariate Methods 3 cr
STAT 796 Computational Statistics 3 cr (required for Bioinformatics Ph.D. option)

 

M.S. Program -- Thesis Option

Functional Genomics Option

  • M.S. Core Courses 11 cr
  • Electives- minimum of 9 credits from the Physiology, Gene Expression, and Genetics areas; a minimum of one course must be selected from each of two of these areas
  • Research to 30 cr total 

Bioinformatics Option

  • M.S. Core Courses 11 cr
  • Electives - minimum of 9 credits; a minimum of one course must be from the Physiology, Gene Expression or Genetics Elective areas; the remainder of the courses must be from the Computational area
  • Research to 30 cr total 

M.S. Program -- Comprehensive Study Option

Functional Genomics Option

  • M.S. Core Courses 11 cr
  • Electives- minimum of 15 credits from the Physiology, Gene Expression, and Genetics areas; a minimum of one course must be selected from each of two of these areas
  • Masters Paper to minimum of 30 credit total 

Bioinformatics Option

  • M.S. Core Courses 11 cr
  • Electives - minimum of 15 credits; a minimum of two courses must be from the Physiology, Gene Expression or Genetics Elective areas; the remainder of the courses must be from the Computational area
  • Masters Paper to minimum of 30 credit total

 Examinations

  1. Qualifying Exam (Ph.D. only): This exam consists of written and oral portions. The student will complete a written exam that emphasizes the application of materials presented in the core courses. The members of the genomics graduate program will submit these questions. The oral exam will be administered by the student's graduate committee and will focus on material beyond the core courses that are specific to the research of the student. Upon completion of the qualifying exam, the student will be accepted as a Ph.D. candidate.
  2. Final Exam (M.S. and Ph.D.): The final exam will be an oral defense of the student's research results. The student's graduate committee will administer the exam.
  3. Comprehensive Study Option Paper (M.S. only): M.S. students pursuing the Comprehensive Study Option will be required to complete an in-depth paper of a specific topic relevant to Genomics. The paper will be reviewed and accepted by the student's graduate committee.

Research


The student is required to perform original research in an area of genomics. This will be under the direction of the student's major adviser. To promote cross-disciplinary research, the student is encouraged to collaborate with a student in the other track. This does not apply to M.S. students pursuing the Comprehensive Study Option. 

Click here for course descriptions.

Links

Bulletin Page
How to Apply
Online Application

Faculty

 

Eugene Berry, Ph.D.
Northeastern University, 1983
Department: Veterinary and Microbiological Sciences
Research Interest: Animal Virology 

Xiwen Cai, Ph.D.
Washington State University, 1998
Department: Plant Sciences
Research Interest: Cytogenetics 

Michael J. Christoffers, Ph.D.
University of Missouri-Columbia, 1998
Department: Plant Sciences
Research Interest: Weed Molecular Genetics  

Edward L. Deckard, Ph.D.
University of Illinois, Champaign-Urbana, 1970
Department: Plant Sciences
Research Interest: Crop Physiology 

Anne Denton, Ph.D.
University of Mainz, 1996
Department: Computer Science
Research Interest: Data Mining, Bioinformatics 

Justin D. Faris, Ph.D.
Kansas State University, 1999
Department: Plant Sciences
Research Interest: Wheat Molecular Genetics 

Marvin W. Fawley, Ph.D.
Miami University, 1985
Department: Biological Sciences
Research Interest: Evolutionary Biology 

David P. Horvath, Ph.D.
Michigan State University, 1993
Department: Plant Sciences
Research Interest: Perennial Weed Physiology 

Shahryar F. Kianian, Ph.D.
University of California-Davis, 1990
Department: Plant Sciences
Research Interest: Wheat Molecular Genetics 

Phillip E. McClean, Ph.D.
Colorado State University, 1982
Department: Plant Sciences
Research Interest: Plant Molecular Genetics 

Steven W. Meinhardt, Ph.D.
University of Illinois, Champaign-Urbana, 1984
Department: Biochemistry and Molecular Biology
Research Interest: Protein Structure/Function 

Kendall Nygard, Ph.D.
Virginia Polytechnic Institute and State University, 1978
Department:  Computer Science
Research Interest: Bioinformatics 

William Perrizo, Ph.D.
University of Minnesota, 1972
Department:  Computer Science and Operation Research
Research Interest: Distributed Database Systems, Centralized Database Systems 

Birgit Pruess, Ph.D.
Ruhr- Universitat Bochum, 1991
Department: Veterinary and Microbiological Sciences
Research Interest: Microbial Physiology and Gene Regulation 

Jack B. Rasmussen Ph.D.
Michigan State University, 1987
Department: Plant Pathology
Research Interest:  Molecular Plant/Microbe Interactions 

Mark Sheridan, Ph.D.
University of California-Berkeley, 1985
Department: Biological Sciences
Research Interest: Control of Growth, Development and Metabolism 

Vasant A. Ubhaya, Ph.D.
University of California-Berkeley, 1971
Department: Computer Science and Operations Research
Research Interest: Algorithm Analysis, Operations Research


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NDSU Graduate School
Phone: +1 (701) 231-7033
Campus address:  106 Putnam Hall
Physical/delivery address:  NDSU Graduate School/106 Putnam Hall/1349 12th Avenue Northwest/Fargo, ND 58102
Mailing address:  NDSU Dept. 2820/PO Box 6050/Fargo, ND 58108
Page manager: NDSU Graduate School

Last Updated: Tuesday, January 28, 2014 8:14:48 PM