03-711 Projects- Fall 2002

Project Guidelines

Each 711 student must complete a class project. The project can be a survey paper or a computational project.

A list of possible topic areas and data sources is given helow. You may also suggest a topic of interest to you, subject to approval by me.
- Project Topics
- Data Sources and Software Tools
Deadlines:

Oct 31: 1-3 page outline/proposal due.
Nov 12: Revised outline/proposal due.
Dec 3 - 5 : Presentations
Dec 05: Final paper due.
Only two projects on the same subject will be allowed. Email me your topic of interest ASAP.
Projects will be carried out individually.
You may propose a project on a topic related to your thesis or other research or course work. However, your project must be related to the course material and involve novel work for this course. For example, you might apply an algorithm you developed elsewhere to a biological dataset.

Survey Paper

Problem area: Survey of an open computational biology molecular problems and/or a novel high throughput biological assay that is generating data sets requiring new computational solutions. Your paper should be along the lines of a Trends, Current Opinion or shorter Computing Surveys article.

Outline:

Problem description:
- Why is it important?
- Why is it challenging?
- Describe data, if relevant.
Current state of the art solutions to the problem.
Critique of those solutions and statement of open problems.
Propose new approaches.

Programming, Data Analysis or Experimental Algorithmics Project

Problem area: Analysis of a biomolecular problem or data set. This can including writing your own code; applying an existing program to a new biological dataset; or novel application of an existing program to a well studied data set. You may compare the performance of a suite of computational biology algorithms or software packages experimentally.

Proposal:

Problem statement
Project goals
Project plan
- Describe data source, format and how it will be used.
- Computational approach
- Tasks to be performed
- How results will be evaluated
Description of deliverable

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Last modified: October 16, 2002. Maintained by Dannie Durand (durand@cs.cmu.edu).