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'Nucleotide Composition Analysis on Evolution of Structural Complexity in RNA Secondary Structure' - COMP 396 Undergraduate Research Project Application Form

INSTRUCTIONS - PROFESSORS: Please print and review this form. Complete or correct the sections, as applicable, from "Supervisor's Name" to "Ethics, safety, and training". Please sign and date near the bottom ("Supervisor's signature").

INSTRUCTIONS - STUDENTS: You may receive this form by email, or you may download it after it has been posted here. Either way, print and review this form. Complete or correct the sections, from "Student's Name" to "Student's Level", and sign ("Student signature"). Ask your supervisor to sign her/his section near the bottom. Take it to the department* corresponding to the course number in Section A; this may or may not be your own department. (* EXCEPTIONS: For NSCI 396 and COGS 396, please bring it to the Interdisciplinary Programs Adviser in Dawson Hall.) Do not register for a '396' course on Minerva until you receive departmental permission. Have a discussion with your supervisor about time/work expectations, keeping in mind that this is a 3-credit course (roughly, 10 hours per week for 12 weeks). Remember that a '396' course is an elective.

INSTRUCTIONS - DEPARTMENTS: After the unit chair/director/designate approves (or not) this project, please notify student. If approved, please give student permission to register on Minerva, and send a copy of this form (with signatures) to the Office for Undergraduate Research in Science (either fax, or internal mail to Dawson Hall 408-A, or PDF scan + email).

QUESTIONS OR FEEDBACK? Contact the Office for Undergraduate Research in Science.


Supervisor's Name: Jerome Waldispühl

Supervisor's Email: jeromew [at] cs [dot] mcgill [dot] ca

Supervisor's Phone: +1-514-398-5018

Supervisor's Website: http://www.cs.mcgill.ca/~jeromew/

Supervisor's department: Computer Science

Course number: COMP 396 (Computer Science)

Term: Winter 2013-2014

Project start date: Monday, January 6, 2014

Project end date: Friday, April 11, 2014

Project title: Nucleotide Composition Analysis on Evolution of Structural Complexity in RNA Secondary Structure

Project description (50-100 words suggested): This project will use evolutionary computational simulations to study the relationship between nucelotide composition and RNA secondary structure complexity. Since secondary structure is essential to the nature of a molecule's function, we aim at understanding primary sequence composition from an adaptive perspective. We will be writing programs to simulate natural selection of RNA molecules under a variety of conditions. These conditions include nucleotide availability restrictions, varying mutation rates, thermodynamic stability selection, etc. From these simulations we will compute statistics describing the complexity and other properties of the evolved structures.

Prerequisite: 1 term completed at McGill + CGPA of 3.0 or higher; or permission of instructor.

Grading scheme (The final report must be worth at least 50% of final grade): The final grade shall be based on a midterm progress report (30%), an oral presentation on the findings (20%) and a final written report (50%).

Project status: This project is taken. The professor has no more '396' projects this term.

Ethics, safety, and training: Supervisors are responsible for the ethics and safety compliance of undergraduate students. This project involves NEITHER animal subjects, nor human subjects, nor biohazardous substances, nor radioactive materials, nor handling chemicals, nor using lasers.

Student's Name:


Student's McGill ID:


Student's McGill Email:


Student's Phone:


Student's Program:


Student's Level (U0 / U1 / U2 / U3):


Student's signature - I certify that this course is with a different supervisor and on a different topic than any previous '396' course I have taken. I have not applied for another '396' course in this term:


Supervisor's signature - I give my permission for the student identified above to register for this project under my supervision:


Date:


Unit chair/director/designate's name:


Unit chair/director/designate's signature - I certify that this project conforms to departmental requirements for 396 courses:


Date: