Graduate Courses

ADSC 8000 |

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Statistical Genetics

Fall Semester – Even years, Various meeting times

3

ADSC 8210 or ADSC 8110 AND STAT 4220 or STAT 6220

R. Rekaya

Currently used methods and techniques in the field of molecular genetics and bioinformatics with emphasis towards applications in livestock species.

BCMB 8110 |

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Protein Structure and Function

Spring Semester – Every year, Tues/Thurs, 2:00 pm – 3:15 pm

3

BCMB 8010

W. Lanzilotta, J. Rose, Z. Wood

The relationship of protein structure to biological function, including protein folding, conformation, stability, and enzyme mechanisms.

BCMB 8125 | BINF 8125

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Cancer Bioinformatics

Spring Semester – Every year, Mon/Fri, 3:00 pm – 4:15 pm

2

None

Y. Xu

This course teaches a fundamentally novel framework of cancer biology. Throughout this course, students will learn how the initial and seemingly harmless stressors induced by chronic inflammation or ROS accumulation can lead to increasingly malignant development of neoplastic cancer tumors as a result of adaptation to the also evolving microenvironment.

BCMB 8210 | BINF 8210

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Computational Methods in Bioinformatics

Fall Semester – Every year, Tues/Thurs, 12:30 pm – 1:45 pm

3

CSCI 4470/6470 or BCMB 4010/6010 or CHEM 6911 or MATH(CSCI) 4630/6630 or permission of department

Y. Xu, N. Kannan, L. Cai, H. Schuttler, B. Foley, W. York

Computational methods, including development and implementation of computer codes, used to solve biological problems; development and solution of statistical and mathematical biological models.

BINF 6006

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Programming and Data Structures for Informatics

Spring Semester – Every year, Mon, 9:05am – 9:55am, Tues/Thurs, 2:00 pm – 3:15 pm

4

No prereqs

M. Keshtgari

An intensive introduction to fundamental concepts in programming and data structures and their application to everyday use in informatics analyses. Hands-on exercises will emphasize problem- solving and writing code to collect, analyze, and present results.

BINF 8211 | BCMB 8211

| MIBO 8211

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Advanced Methods for Biological Data Analyses

 

Spring Semester – Every year, Tues/Thurs, 12:30 pm – 1:45 pm

3

BCMB(BIOL)(CHEM) 3100 or BCMB 4010/6010 or BCMB 4020/6020 or GENE(BIOL) 3200 or permission of department

S. Zhao, J. Mrazek

Advanced strategies and methodologies for large-scale data analyses in support of genomics, transcriptomics, proteomics, and studies of biological pathways and networks.

BINF 8980(D) |

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Case Studies in Systems Biology

Fall and Spring Semester – Every year, Tues/Thurs, 4:00 pm – 5:30 pm

3

BCMB(BIOL) 8210 or BCMB(MIBO)(BINF) 8211 or STAT 4630/6630 or CSCI 4490-6490

J. Gutierrez & J. Arnold or A. Edison &A. Bucksch

Shared research experience in systems biology. Each semester the research case study will be either on the biological clock, hot-pathogen interactions, or marine metagenomics. Project will include genomics experiments involving microfluidics, network identification, and genomic analysis. Emphasis will be placed on transformative research accomplished on the clock, host-pathogen system, or marine ecosystem.

CHEM 8330 | BINF 8330

| BCMB 8330

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Macromolecular Simulations

 

Spring Semester – Every year, Tues/Thurs, 3:30 pm – 5:30 pm

3

None

R. Woods

Introduces techniques of molecular simulation relevant to biomolecular systems, and provides extensive hands-on experience with current modeling and simulational programs.

ECOL 8910 |

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Perspectives in Computational Ecology

Spring Semester – Every year, Mon/Wed/Fri, 8:00 am – 8:50 am

Instructor will arrange contact hour with individual student

Permission of department

J. Drake, P. Rohani

Discussion-based course focusing on computational concepts and methods in ecology. Emphasizes practical techniques relevant to research.

EHSC 8010 |

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Advanced Topics in Environmental Health Science I

Fall Semester – Every year, Various meeting times

3

Permission of department

All EHS Graduate faculty

An advanced course focusing on fundamental paradigms and evolving concepts of environmental health science, including toxicology, environmental and occupational exposure assessment, environmental epidemiology, food safety.

EHSC 8250 | EPID 8250

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Biomarkers: Public Health, Clinical, and Environmental Toxicology Applications

Fall Semester – Odd years, Various meeting times

3

EPID 7010 or EHSC 7060 or EHSC 4490/6490

J. S. Wang

Biomarkers of disease, exposure to chemicals or pathogens, and adverse insults on humans play an important role in Environmental Health Science, Epidemiology, and Toxicology.

EHSC 8450 |

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Genome Technologies

Not offered on a regular basis

1 to 3

[(BIOL 1103 and BIOL 1103L) or (BIOL 1104 and BIOL 1104L) or BIOL 1107-1107L or BIOL 1108-1108L)] and [GENE(BIOL) 3200 or EHSC 4700/6700] or permission of department

T. Glenn

The development and use of new high throughput molecular genetic tools. Provides detailed insight for applications, acquisition of instrumentation, and use of genomic assays.

EHSC 8460(L) |

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Environmental Genomics

Fall semester – Every year, Tues/Thurs 2:30 pm – 4:45 pm

1 to 3, Repeatable for max 12 hours

Permission of department

T. Glenn

Covers the background and use of new high throughput genomic tools for environmental studies. Content and credits will vary depending on subjects covered, which are modified to meet the needs of enrolled students.

ENTO 8050 |

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Phylogenetics, Systematics, and Evolution

Spring semester – Even years, Various meeting times

2

ENTO 4000/6000-4000L/6000L or permission of department

K. Ross, J. McHugh

Graduate-level reading and discussion covering philosophical and methodological aspects of biological classification and phylogenetic reconstruction with special reference to insects.

EPID 8060 | BIOS 8060

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Modern Applied Data Analysis

Spring semester – Every year, Tues/Thurs 2:00 pm – 3:15 m

3

BIOS 7010 or permission of school

A. Handel

Covers a variety of modern approaches for analyzing and interpreting data commonly encountered in public health, biomedical sciences, and related areas.

EPID 8515 | ECOL 8515

| IDIS 8515

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Modeling Infectious Diseases

 

Fall semester – Every year, Tues/Thurs 12:30 pm – 2:15 pm

4

EPID 7010 or ECOL 4000/6000 or permission of department

A. Handel

Computational and mathematical methods for building and analyzing models of infectious diseases.

FANR 8140 | BINF 8140

| GENE 8140

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Functional Genomics

 

Spring semester – Every year, Tues/Thurs 9:30 am – 10:45 am

3

None

C.J. Tsai

Fundamentals and practical applications of functional genomics in biological research.

GENE 8940 | BINF 8940

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Applied Genome Analysis

Fall semester – Every year, Tues/Thurs 2:00 pm – 3:15 pm

3

GENE(BIOL) 3200 or BCMB(BINF) 8210 or permission of department

J. Kissinger, C. Bergman

Hands-on application of bioinformatics approaches used in whole genome analyses.

IDIS 8080L |

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Advanced Molecular Techniques

Summer semester (Maymester) – Even years, Monday thru Friday 9:00 am – 12:00 pm, 1:00 pm – 4:00 pm

3

None, Not open to students with credit in PARA 8080L

D. Peterson

Current techniques in molecular analysis of pathogens. Emphasis is placed on bioinformatics and procedures for genomic analysis, rapid isolation and characterization of parasite molecules, and the detection and identification of parasites in host vector.

INFO 8000 |

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Foundations of Informatics for Research and Practice

Fall and Spring semesters – Every year, Tues/Thurs 11:00 am – 12:15 pm

3

Permission of major

K. Johnsen

This interdisciplinary course provides instruction and exposure to the theory, tools, and techniques that connect data to information, knowledge, and decisions. Students will gain the knowledge and skills necessary to deeply engage in the increasingly interdisciplinary, data-driven, security-focused industrial and research enterprises as they complete practical analytical tasks and projects.

MIBO 8270L | BINF 8270L

| BCMB 8270L

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Composition, Organization, and Evolution of Genomes

Spring semester – Every year, Wed/Fri 12:20 pm – 2:15 pm

3

None

J. Mrazek, S. Zhao

Computational approaches to the study of properties of eukaryotic and prokaryotic genomes, genome evolution, and statistical and computational methods for genome analyses and comparisons.

PBGG 8874 | CRSS 8874

| HORT 8874

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Genome Selection

 

Spring semester – Even years

1

PBGG(CRSS)(HORT)(PBIO) 8871 or PBGG(CRSS)(HORT)(PBIO) 8872 or permission of department

J. Wallace

Concepts, implementation, and application of predicting organism phenotypes from genome-wide marker sets.

PBGG 8875 | CRSS 8875

| PBIO 8875

 

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Genome-wide Association in Plants

Spring semester – Even years

1

PBGG(CRSS)(HORT)(PBIO) 8871 or PBGG(CRSS)(HORT)(PBIO) 8872 or PBGG(CRSS)(HORT) 8874 or permission of department

J. Wallace

The methods, design, and implementation of genome-wide association studies (GWAS) to map genetic loci in crop plants.

PBIO 8350(L) | BINF 8350(L)

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Molecular Phylogenetics and Evolution

Spring semester – Every year, Mon/Wed 11:15 am – 12:05 pm

3

Permission of major or permission of department

J. Leebens-Mack, L. Liu

Students will be introduced to a variety of comparative approaches for elucidating the evolution of species, populations, and molecules.

STAT 8440 |

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Statistical Inference for Bioinformatics

Spring semester – Every year, Mon/Wed/Fri 9:05 am – 9:55 am

3

STAT 6220 or STAT 6315

L. Liu

Concepts of statistical inference for students in the life sciences, including properties of single and multiple random variables, probability distributions, maximum likelihood, Bayesian inference, and multiple testing.

STAT 8460 |

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Advanced Computational Biology and Bioinformatics

Spring semester – Odd years, Mon/Wed/Fri 10:10 am – 11:00 am

3

STAT 8210

P. Ma, W. Zhong

Development of computational methods to infer biological information from data, including DNA sequences, gene expression levels, epigenome, and microbiome data.