Course Catalog » Course Listing for Biological & Medical Informatics

203  Biocomputing Algorithms  (3 units)   Winter

Instructor(s): R. Hernandez       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: Lecture, Laboratory, Project

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)   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

Activities: Seminar

Presentation and discussion of bioinformatics and medical informatics research topics.

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

Instructor(s): Staff

Activities: Laboratory

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

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.

224  Graduate Research Opportunities Seminar  (1 units)   Fall, Winter

Instructor(s): R. Hernandez

Restrictions: First year BMI students.       Activities: Seminar

This course offers 1st year students a series of weekley presentations of the research interests of the BMI basic science faculty. The purpose is to acquaint new graduate students with research projects and opportunities in faculty labs. The course is modeled after PSPG 225 A&B.

225  Research Project  (1 - 8 units)   Fall, Winter, Spring

Instructor(s): Staff

Restrictions: MS students only.       Activities: Project

A significant, planned, indepndent research project in collaboration with research advisor, and designed to make a practical contribution to the field of informatics. Final report fulfills requirement for MS degree.

250  Research  (1 - 8 units)   Fall, Winter, Spring

Instructor(s): Staff

Activities: Project

For PhD students working with research advisor in preparation for oral qualifying exam.

299  Dissertation  (0 units)   Fall, Winter, Spring

Instructor(s): Staff       Prerequisite(s): Advancement to candidacy.

Restrictions: BMI students only.      

For students advanced to candidacy working on their dissertation.