undergraduate summer research experience...undergraduate summer research 2012 •two new...
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Undergraduate Summer Research Experience
Joel Ducoste, Cranos Williams, Ron Sederoff, Vincent Chiang
NCSU
Mark Melton St. Augustine College
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Objectives
• Provide summer research experience in Plant Genomics
• Increase graduate related research opportunity to under-represented groups
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Process
• Ad was placed at St Augustine’s College and North Carolina State University
• Ad was circulated to the biology, chemistry, and all engineering departments
• Several students expressed interest and resumes were reviewed.
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Undergraduate Summer 2010 Research Results
• Two undergraduate students performed research – Mr Jamian Smith from St. Augustine’s College, Mr. Ransford Damptey
from NC State University. Mr Smith graduated from Engineering Mathematics. Mr. Damptey is a junior in Electrical Engineering.
Undergraduate Research:
• Simulated the metabolic pathway of yeast and compared the results to literature data
• Performed steady state analysis and Lyapunov Method for Region of Attraction
• Compared continuous Boolean approach to Michaelis-Menten Kinetics for metabolic flux analysis
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Undergraduate 2011 Summer Research Results A representative integrated module in S. cerevisiae
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Undergraduate 2011 Summer Research Results Glucose Activated Transcription factor Hot1
ATPc
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Undergraduate 2011 Summer Research Results
Figure (left). Potential patterns for
phase portraits that describe the
influence of parameters on steady
state values
Figure (right). The phase portrait to
the left shows the relation of ATPn
and ADPn, and it’s stability within
the metabolic system.
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Undergraduate 2011 Summer Research Results
Consider the first four reactions from the upper part of Glycolysis. The
image below displays reactions that balance the energy ATP and ADP
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Undergraduate 2011 Summer Research Results
Law of Mass Action is applied this system to generate a series of
ODEs
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Undergraduate 2011 Summer Research Results Modeling Continuous Boolean Equations
Convert a Directed Graph
A B
C
To Boolean logic
To Continuous Boolean logic
1
1
A B
BA ABC
n n
nn nn
AB
dC A B
dt BK A K
Activation Inhibition
Activation Inhibition
( , ) ( , ) !C f A B where f A B A and B
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Undergraduate 2011 Summer Research Results Glucose 6-phosphate Fructose 6-phosphate
Fructose 1,6-biphosphate
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Undergraduate Summer Research 2012
• Two new undergraduate students have been identified – Mr. Joaquin Green from St. Augustine’s College and Ms. Liya
Weldegebriel from NC State University. Mr. Green is a senior in Engineering Mathematics. Ms. Weldegebriel is a junior in Environmental Engineering.
• Students will be working on the modeling portion of the project
• Potential projects include: – Steady State Analysis of Regulatory Signaling model
– Steady State Analysis of Metabolic flux model
– Development and execution of Continuous Boolean Kinetic model
– Uncertainty and Sensitivity analysis of Continuous Boolean Kinetic model
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NC STATE UNIVERSITY
Undergraduate Summer Research Experience
• Questions
• Questions
• Questions