- INCOMING MSBS STUDENTS
- NEW 5.5yr Pipeline Program
with Dept. of Biological
Sciences (HTML version)
- BPG Degrees
- BPG Core Courses (Certificate)
- Curriculum for MSBS Degree
- Choose Ohio First Scholarship Program: 5.5yr Dual Degree
- BPG "NEWS"
- BPG Brochure (HTML version)
- Genomics Core Lab
- Grants and Awards
- Recent Publications
- BPG Databases
- BPG Faculty
- Contact Information
- BioInfoOhio Consortium
Graduate Handbook 2012/2013
Health Science Campus
Health Education Building & Center for Creative Education Building
BPG Computer Classroom: HEB 1st Floor, Room #127
Genomic Core Lab: HEB 2nd Floor, Room #200
BPG Office: CCE 3rd Floor, Lobby
Applicants to the MSBS degree with a concentration in Bioinformatics, Proteomics and Genomics must meet the following requirements, in addition to those of the UTHSC Graduate School:
1. Earned bachelor’s degree or earned graduate degree from an accredited college or university. Applicants with a degree in progress will be considered.
2. GPA of 3.0 or above. GPA of 2.5 or above, may apply for provisional acceptance that would change to Regular (non-probationary) status, if their first term graduate coursework has a GPA of 3.0 or above (4-point scale).
3. Minimum GRE composite score of 300 (combined verbal and quantitative) and 3.5 (analytical). GRE scores are required and they must be current (within the last five years). The GRE is not required if you have MCAT scores as an alternative (taken by medical science and MD/PhD Program applicants as national equivalent).
4. Official transcripts for undergraduate and any graduate education.
5. Three letters of recommendation from college faculty or research supervisors
6. Completed online application form, at http://apply.utoledo.edu, and accompanying application fee (or waiver) *
7. TOEFL scores for applicants whose native language is not English. We require a score of 550 or higher for the paper-administered version, 213 or higher for the computer-administered version, and 80 or higher for the Internet-administered version. IELTS scores are accepted in place of TOEFL (6.5 or higher). However, beginning with Spring 2014 admissions, IELTS will no longer be accepted.
Previous research experience is considered, but not required. Students can begin
at the start of any term, though Fall entry is recommended. Admissions are made on
a rolling basis until the class is filled. There is no fixed deadline.
* Students who have already applied to the Program can check their application status online at this link http://application.utoledo.edu. If a student's application is incomplete, this site will indicate which documents are missing.
Click here for BPG MSBS COURSE SCHEDULE (in full PDF format ) OR Click here for HTML format.
Information for International Students can be found here: http://www.utoledo.edu/graduate/prospectivestudents/admission/guidelines.html
GRADUATE STUDENT TRAVEL SUPPORT - Please see Graduate Studies Handbook at this link:
SELECTING A MAJOR ADVISOR AND RESEARCH PROJECT
1) Before selecting a major advisor for the Research Project, the student is required to do a minimum of two rotations of 6 weeks duration with two different BPG faculty members (Rotations in BPG (BIPG 5800). In each rotation, the student participates in an on-going research program with a faculty member in the BPG Program.
2) A Scholarly Project (BIPG 5900) or Thesis in Bioinformatics (BIPG 6990) is required with a minimum of 10 credit hours. The student selects a major advisor from among BPG faculty members and must have an advisory committee composed of at least 3 members; the major advisor, plus a minimum of two others, one of whom should be a BPG faculty member.
3) The student must submit a Project Proposal for review and approval by the advisory committee prior to beginning work on the project.
Please click on the following link to view UT faculty members who are associated with the BPG Program, and are approved Mentors for our students. MENTORS for BPG Students (full PDF format)
REQUIRED FORMS for Graduate Students: (click form name to access)
1) Plan of Study for the Master's Degree form is required to be submitted BEFORE the student completes 12 credit hours (during the Fall 1 term).
2) G.R.A.D. Form (Graduate Research Advisory Committee Approval & Assurances Form) is absolutely required prior to the student beginning any research (by the end of the Fall 1 term).
3) Thesis Forms and Additional Instructions Please review this page on the Graduate School website for specific instructions on preparing your thesis, and required forms before and after your defense. Please keep in mind that the Qualifying Exam must be taken BEFORE thesis research begins. During the semester you are doing your thesis, you must be registered for at least one credit. This is a Graduate School requirement. This should be a bioinformatics course. If you wish to take a course from another program, please discuss this with your advisor and Dr. Robert Blumenthal before registering.
SUGGESTED COURSE OPTIONS
Students are likely to have diverse backgrounds. For example, some might have a background in computer science or statistics, while others may have a background in the biological sciences. The same core courses are taken by all students. However, the electives chosen will be different.
For the MSBS in BIPG, either ONE of the following College of Business & Innovation courses may be used as ONE of the elective requirements, if your Thesis Committee agrees.
HURM6730 PERFORMANCE MANAGEMENT 3cr (Spring) UT Deppartment of Management
This course is designed to provide practical working knowledge of the processes of setting expectations, monitoring performance, coaching and developing employees, and assessing and rewarding good performance in rapidly changing organizations
MGMT6160 LEADING WITH POWER AND INFLUENCE 3cr (Fall) UT Department of Management
The primary focus of this course is the effective use of political and social influence in organizations. This course will develop the ability to recognize, analyze, and apply sources of power and influence beyond formal authority.
MGMT6150 LEADING AND DEVELOPING YOURSELF 3cr (Fall) UT Department of Management
The course explores how one's own leadership competencies can be developed and applied most effectively in a variety of situations.
The Molecular Selective will be selected from the following courses offered by various departments at UT and BGSU. The course selected will depend on availability, scheduling and student background, with approval of the student's advisor, and Thesis Committee. Note that tuition for courses designated as Undergraduate courses will have to be paid for by the student.
BMSP6310 SYSTEMS PATHOPHYSIOLOGY I: 2.5cr (Spring: 1st half of term) UT Biomedical Sciences Program
The course will cover the fundamentals and current research efforts in biomedical sciences, emphasizing diseases of the cardiovascular, immune, and nervous systems, as well as metabolic and infectious diseases.
BMSP6320 SYSTEMS PATHOPHYSIOLOGY II: 2.5cr (Spring: 2nd half of term) UT Biomedical Sciences Program
The course will cover the fundamentals and current research efforts in biomedical sciences, emphasizing diseases of the cardiovascular, immune and nervous systems, as well as metabolic and infectious diseases.
BMSP6330 CURRENT PROBLEMS AND RESEARCH APPROACHES IN PROTEIN STRUCTURE 2.5cr (Fall) UT Biomedical Sciences Program
The course will cover principles of protein structure/function relationships in proteins, protein folding, ligand-protein interactions and mechanism of enzyme-catalyzed reactions. Special emphasis will be given to the present-day research.
BMSP6380 METHODS IN BIOMEDICAL SCIENCES 3cr (Fall) UT Biomedical Sciences Program
This course will cover the basic principles and applications, of sate-of-the-art technology in molecular biology, protein chemistry, and studies with culture cells, tissue explants and transgenic animal models.
CHEM8980 Section 001 SPECIAL TOPICS IN CHEMISTRY: MOLECULAR MODELING 4cr (Spring)
UT Department of Chemistry
Discussions of newly-developing areas in chemistry research.
PUBH6130 MOLECULAR EPIDEMIOLOGY 3cr (Fall) UT Dept. of Public Health and Preventative Medicine
The course focuses on the application of epidemiological techniques to the study of effects of occupational and environmental exposures.
PUBH6180/8180 CANCER EPIDEMIOLOGY 3cr (Summer - Online) UT Dept. of Public Health and Preventative Medicine
Focuses on a number of cancers, including the most incident cancers in the United States. Provides a broad overview of cancer epidemiology, and basic substantive knowledge regarding many cancers and their risk factors, prevention and biology and pathogen.
BGSU: BIOL5660 BGSU GENOMICS Graduate Students 3cr (Fall 2014, and bi-annually
BGSU College of Arts and Sciences
A contemporary analysis of the molecular biological and bioinformatic methods for the study of complete genomes of organisms.
BGSU: CHEM6940 WORKSHOP ON CURRENT TOPICS IN CHEMISTRY 1-4cr (Taught on demand) BGSU College of Arts and Sciences
Workshop on current topics and issues within discipline: topics vary from semester to semester.
The Advanced Programming Selective will be selected from the following courses offered by various departments at UT and BGSU. The course selected will depend on availability, scheduling and student background, with approval of the student's advisor and Thesis Committee. Note that tuition for courses designated as undergraduate courses will have to be paid for by the student.
BGSU: CS215 ADVANCED PROGRAMMING CONCEPTS II 3cr (Fall, Spring, Summer). BGSU Department of Computer Science
Advanced programming in C++. Introduction to object oriented programming techniques. Elementary data structures including lists, stacks, and queues. Dynamic storage allocation concepts. Interactive debugging techniques and use of recursion. Prerequisite: Grade of C or better in CS 205.
BGSU: CS500 COMPUTING FOR GRADUATE STUDENTS 3cr (Spring, Summer) BGSU Department of Computer Science
Problem solving and computer programming techniques. Variables, loops, and other control structures, arrays, subprograms, and parameter passing. Credit not applicable toward a degree in computer science. Graded S/U.
CSET4100 SERVER-SIDE PROGRAMMING 3cr (Fall) UT Computer Science & Engineering Technology
Covers Common Gateway Interface (CGI) programming on the Internet using the most popular scripting languages. Topics include client-side programs, server-side programs, distributed database creation and searching. Prerequisite: Junior standing.
CMPT2110 ADVANCED CONCEPTS IN PROGRAMMING 4cr UT Department of Business Technology
The course covers advanced programming techniques and the concepts of object‑oriented programming using a currently popular programming language (such as C++). Prerequisite: CMPT 2030 CMPT 2210 DATABASE DESIGN
EECS4/5750 MACHINE LEARNING 3cr UT Department of Electrical Engineering and Computer Science
This course emphasizes learning algorithms and theory including concept, decision tree, neural network, computational, Bayesian, evolutionary, and reinforcement learning.
INFS3160 BUSINESS APPLICATION DEVELOPMENT 3cr UT Department of Information Systems, Marketing, E-Commerce & Sales
Building on programming skills developed in INFS3150, this course emphasizes database connectivity, data retrieval, and business application development. The course will also survey an object-oriented language like C++ Java.
INFS3380 WEB APPLICATION DEVELOPMENT I 3cr (Summer - Online) UT Department of Information Systems, Marketing, E-Commerce & Sales
An introduction to business application program development on the web using contemporary technologies with emphasis on client-side applications. Implications of information technology projects on organizations will be discusses. Prerequisite: INFS 3150
PUBH6070 GENETIC EPIDEMIOLOGY 3cr (Summer) UT Department of Public Health and Preventative Medicine
Introduces genetic epidemiology methods, principles of population genetics including linkage and association studies used in assessing familial aggregation, and transmission patterns for identifying the genetic basis of common diseases.
PUBH6110 CATEGORICAL DATA ANALYSIS 3cr (Summer) UT Department of Public Health and Preventative Medicine
This course introduces the theory and application of methods for categorical data, with emphasis on biomedical and public health applications. Topics include contingency tables, log-linear, logistic regression and Raush models, multivariate methods for matched pairs and longitudinal data. The methods are illustrated with SAS and/or SPSS, R.
DATA BASE MANAGEMENT SELECTIVES
The Database Management Selective will be selected from the following courses offered by various departments at UT and BGSU. The course selected will depend on availability, scheduling and student background, with approval of the student's advisor and Thesis Committee. Note that tuition for courses designated as undergraduate courses will have to be paid for by the student.
BGSU: CS5620 DATABASE MANAGEMENT SYSTEMS 3cr (Spring) BGSU Department of Computer Science
Semantic models for conceptual and logical design of databases. Detailed study of relational systems: design, dependency, and normal forms. Use of interactive and embedded query languages. Overview of topics such as database connectivity, security, and object-oriented systems. Prerequisites: Admission to MS in CS program, or consent of department, plus CS202 or equivalent.
EECS 5560 DATABASE SYSTEMS I 3cr (Fall) UT Department of Electrical Engineering and Computer Science
The following topics are covered: relational database modeling, query languages, design issues and implementation issued of databases. An appropriate database language is introduced and used to demonstrate principles. Prerequisite: EECS1510
EECS 5570 DATABASE SYSTEMS II 3cr UT Department of Electrical Engineering and Computer Science
The emphasis of this course is on database recovery techniques, integrity constraints and concurrency control. The similarities and differences between distributed, networked, client/server and object oriented database systems are also investigated. Prerequisite: EECS5560
INFS4620 ENTERPRISE DATABASE SYSTEMS 3cr UT Dept. of Information Systems, Marketing, E-Commerce & Sales
In-depth exposure to database concepts including relational and Obect Data Models, normalization, logical design, stored functions, procedures, triggers, forms and reports will be explored using a business database package.
CMPT1420 MICROSOFT ACCESS DATABASE APPLICATIONS 4cr (Spring) UT Department of Business Technology
An analysis of the use of a DBMS in solving business problems with an emphasis on the entering, updating, manipulating, storing and retrieving of information. Prerequisite: CMPT1100 or 1020
CMPT2210 DATABASE DESIGN 3cr UT Department of Business Technology
Focused study of data structures and database management systems. Topics will include data modeling and data design methodologies. Prerequisite: CMPT 1020 or CMPT 1100
STUDENT LEARNING OBJECTIVES (SLO's) FOR BIOINFORMATICS MSBS DEGREE:
Graduating students WILL BE ABLE TO:
1) Describe mammalian and nonmammalian genome structure and function, including (for example):
- Coding/non-coding sequence distribution
- Isochore structure
- Repeated element distribution
- Intron/exon structure and distribution
- Distribution and dynamics of methylation
- Transcription factor binding sites (for long- and short-range factors)
2) Discuss the processes of genome evolution, including (for example):
- Mechanisms of mutation
- Consequences and exploitation of SNPs
- Fixation of mutations
- Genetic drift
- Major theories for the origin of novel genes
- Nature and basis of codon bias
3) Describe and use analytic tools associated with systems/bioinformatic approaches, including (for example):
- Transcriptomics – microarray analysis vs. deep sequencing
- Proteomic mass spectroscopic methods (identification and abundance)
- Determining statistical significance in large bioinformatic datasets
- Determination and structure of interaction networks
- Functional network maps
4) Carry out appropriate statistical analysis of sequence information, including (for example):
- Probabilistic methods
- Deterministic methods
- Machine learning methods, including Support Vector Machines (SVMs)
- Cluster analysis
5) Demonstrate competent use of existing bioinformatic and statistical software, including (for example):
- R statistical tools
- Alignments and their interpretation
- Phylogenetic analyses
- Programs to predict genes and transcription factor binding sites
- Programs to display, predict and analyze 3D biomolecule structures
6) Develop and use basic PERL programs for bioinformatic analyses, including (for example):
- Familiarity with the UNIX operating system
- Writing scripts for extracting information from databases
- Creating databases
- Interfacing with supercomputers
7) Apply bioinformatic methods to clinical problems, by demonstrating understanding of:
- Biomarker discovery and validation
- Major diseases such as cancer, diabetes, and autoimmunity
8) Communicate competently both in writing and orally
- With fellow team members in research projects
- With the broader scientific public
9) Demonstrate familiarity with and adherence to research ethics.