Course Catalog » Course Listing for Biological & Medical Informatics

203  Biocomputing Algorithms  (4 units)   Winter

Instructor(s): A. Sali       Prerequisite(s): Students are expected to have programming competence in a language such as Python, C, C++, or Fortran. Students should also posses a basic knowledge of statistics (undergrad. level).

Restrictions: For all iPQB students and Bioengineering students. Others require instructor approval.       Activities: Direct - Lecture, Student - Lecture

Introduction to computational issues and methods used in the field of bioinformatics and computational biology. This course emphasizes the implementation, analysis, and validation of methods. It is about attacking computational problems in biology, not expert use of existing tools. Areas addressed include analytical thinking, problem decomposition, and algorithm design and implementation. Assignments will focus on the design and implementation of key bioinformatics algorithms.

206  Statistical Methods for Bioinformatics  (4 units)   Fall

Instructor(s): K. Pollard       Prerequisite(s): Upper division course work in biological sciences including knowledge of proteins and protein structure, computer literacy.

Restrictions: None.       Activities: Lecture, Project

Broad survey of bioinformatics with accompanying assignments. Topics covered include genomics, database searching, family/super-family analysis, structural genomics, complex systems, genetic circuits, and protein-protein interactions.

208  Computational Evolutionary Genomics  (3.5 units)   Winter

Instructor(s): R. Hernandez       Prerequisite(s): BIO MD INF 206 or other bioinformatics background with instructor approval.Familiarity with programing using the R statistical package (understanding of basic loops, ability to define variables, write functions, and perform basic statistical tests).

Restrictions: Programming experience helpful but not required.       Activities: Lecture, Laboratory

In this course we will take an evolutionary approach toward understanding patterns of genetic variation, focusing on computational methods commonly implemented in population and comparative genomics. We will consider the role of evolutionary processes in shaping patterns of human disease susceptibility. Each week we will read papers from the literature and discuss/implement their computational methods.

219  Special Topics in Bioinformatics  (3 units)   Fall, Spring

Instructor(s): Staff       Prerequisite(s): None.

Restrictions: Priority given to first-year graduate students.       Activities: Lecture, Conference, Independent Study

Each course offering will focus on the literature of a current important area of Bioinformatics. Students will be expected to read assigned papers critically before class and to present and discuss papers in class. Students will also be expected to write and present a brief research proposal based upon their reading. Topics in Molecular, Cellular, developmental, systems, and computation biology will be covered in separate course offerings.

220  Informatics Seminar  (1 units)   Fall, Winter, Spring

Instructor(s): R. Hernandez       Prerequisite(s): None.

Restrictions: n/a       Activities: Lecture

This course consists of presentation and discussion of research in quantitative biology and bioinformatics by outside speakers.

221  Informatics Rotation  (1 - 8 units)   Fall, Winter, Spring, Summer

Instructor(s): Staff       Prerequisite(s): None

Restrictions: None       Activities: Laboratory

An introduction to the specific research currently underway within a faculty member's laboratory.

222  Student Informatics Seminar  (1 units)   Fall, Winter, Spring

Instructor(s): R. Hernandez       Prerequisite(s): None

Restrictions: Must be a student in the Biological & Medical Informatics Graduate Program       Activities: Direct - Seminar, Student - Seminar

This course gives students the opportunity to develop and polish their presentation and research skills. All second year and above BMI students present their research to other students, postdocs and faculty. Their presentations are critically evaluated and they are provided with constructive feedback regarding their discussion topic and presentation skills.

223  Critical Topics in Biomedical Informatics  (1 units)   Fall, Winter, Spring

Instructor(s): B. Shoichet       Prerequisite(s): None.

Restrictions: None.       Activities: Seminar

Critical review of published scientific papers from scholarly journals, including comprehension, analysis and evaluation of published scientific data.

250  Research  (4 - 8 units)   Fall, Winter, Spring, Summer

Instructor(s): Staff       Prerequisite(s): None

Restrictions: None       Activities: Direct - Project

In this course, students will work together with a primary research advisor to select a research question and design a project workplace that will be carried out by the student. Through this activity, the student will gain experience in research strategy, learn techniques associated with modern biomedical research, and practice how to interpret results. At the conclusion of the course, the student will present on their progress.