Courses Taught by Trey Ideker

Trey IdekerTrey Ideker
Professor of Medicine and Bioengineering


New course coming soon: 
Network Biology (MED 283 / BIOM 289 / BNFO 286) 
Networks are pervasive in biology and medicine— from signaling and metabolism to immunity, the brain, and networks of human individuals. This course introduces biological networks, their types and major analysis techniques, and their roles in biomedical research and the clinic.


Previous Courses Taught

BENG 203. Genomics, Proteomics, and Network Biology
Annotating genomes, characterizing functional genes, profiling, reconstructing pathways.

BIOM 262 / BGGN 237. Quantitative Methods in Genetics
Quantitative Methods in Genetics is designed to teach experimental and analytical approaches in modern genetics, from experimental design through data analysis in each of several topic areas. The course will use a combination of lectures, demonstrations, and hands-on data analysis.

BENG 183. Applied Genomic Technologies
Principles and technologies for using genomic information for biomedical applications. Technologies will be introduced progressively, from DNA to RNA to protein to whole cell systems. The integration of biology, chemistry, engineering, and computation will be stressed. Topics include: Technology for the Genome, DNA Chips, RNA Technologies, Proteomic Technologies, Physiomic and Phenomic Technologies, Analysis of Cell Function.
Prerequisite: grade of C– or better in BIMM 100 or Chem 114C; BICD 110; Bioinformatics majors only.

Journal reviews of the course:  
IEEE Transactions on Education (2007) -- "Bioinformatics and Proteomics: An Engineering Problem Solving-Based Approach"
Nature Review Genetics (2010) -- A review of next generation sequencing technology.

BENG 160. Chemical and Molecular Bioengineering Techniques
Introductory laboratory course in current principles and techniques of chemistry and molecular biology applicable to bioengineering. Quantitation of proteins and nucleic acids by spectrophotometric, immunological, and enzymatic methods. Separations and purification by centrifugation, chromatographic, and electrophoretic methods.
Prerequisites : BIBC 102, BICD 100, BENG 100, MAE 170; majors only or consent of instructor.

BENG 187. Bioengineering Design Project: A). Planning 1; B) Development 1
A) Attendance at a weekly planning session on design projects. B) Development of original bioengineering design to solution of problem in biology or medicine. Analysis of economic issues, manufacturing and quality assurance, ethics, safety, government regulations, and patent requirements. Oral presentation and formal engineering reports.
Prerequisites : grade of C- or better in MAE 170; BENG 101 or BICD 100; BENG 112A or CENG 101A; BENG 140A or BIBC 102; BENG 186B or BENG 123; Bioengineering or Bioengineering: Biotechnology majors only or consent of instructor. (S)

BENG 202. Bioinformatics II: Sequence and Structure Analysis - Methods and Applications
Introduction to methods for sequence analysis. Applications to genome and proteome sequences. Protein Structure, sequence-structure analysis.