Skip Navigation

Course Directory

140.637.01
Biological Databases and Distributed Computing

Location:
East Baltimore
Term:
2nd term
Department:
Biostatistics
Credits:
3 credits
Academic Year:
2011 - 2012
Instruction Method:
TBD
Class Times:
  • M W F,  1:30 - 2:50pm
Auditors Allowed:
Yes, with instructor consent
Grading Restriction:
Letter Grade or Pass/Fail
Course Instructors:
  • Fernando Pineda
  • Michael Ochs
Contact:
Fernando Pineda
Frequency Schedule:
Every Other Year
Next Offered:
2023 - 2024
Resources:
Prerequisite:

140.636, or consent of instructor

Description:

Provides students with the principles and skills required to implement biological databases and their web-based interfaces. Presents essential notions of distributed computing on the worldwide web. Includes the fundamentals of TCP/IP, client-server model, http protocol, server-side and client-side scripting with CGI and PHP and Javascript. Presents the principles of biological database design using relational and object-oriented database models and management systems (e.g. MySQL and Zope). Topics include SQL, database design, normalization, optimization and ER modeling. Discusses biological database interoperability, with e.g. XML, XML schema, and ontologies (i.e. GO). Guest lectures provide insights into significant biological database projects such as the Human Protein Reference Database (HPRD) and DRAGON. As a final project, students develop and publish a database-driven web-based application for a biological application.

Learning Objectives:

Upon successfully completing this course, students will be able to:

  1. Use, specify, develop and publish biological databases with web-based interfaces
  2. Describe essential notions of distributed computing on the world-wide-web
  3. Explain the fundamentals of TCP/IP, the client-server model, http protocol, server-side and client-side scripting
  4. Describe the principals of biological database design using a relational database model and the MySQL database management system
  5. Operate SQL, database design, normalization, optimization
  6. Apply basic concepts of discuss modeling and representation using, e.g. ER models, XML schema and ontologies
  7. Discuss significant biological database projects such as the Human Protein Reference Database (HPRD) and DRAGON
Methods of Assessment:

Method of student evaluation based on homework and final project

Instructor Consent:

No consent required

Jointly Offered With:
Special Comments:

This course will now be offered on alternating odds years (ie, next offered during 2011-12)