Navigation Links
New method for estimating parameters may boost biological models
Date:3/6/2012

Modeling biological systems can provide key insights for scientists and medical researchers, but periodic cycles that repeat themselves so-called oscillatory systems pose some key challenges. Researchers at North Carolina State University have developed a new method for estimating the parameters used in such models which may advance modeling in research areas ranging from cancer to fertility.

"These oscillatory systems are found in everything from mechanisms in cells that allow a cell to replicate itself to the sleep-wake cycle in mammals," says Dr. Cranos Williams, an assistant professor of electrical and computer engineering at NC State and co-author of a paper describing the work. "The method we've developed should expedite the development of more accurate parameters, which can be used to create more precise and predictable models of oscillatory biological systems." Understanding such oscillatory systems is important for research into cancer, cardiac health, fertility and many other fields, he adds.

Modeling a biological system relies, in part, on defining parameters for that system, which correspond to how the system functions under normal conditions. Once those parameters are established, they can be used to create a model to predict the system's response under different conditions.

To estimate parameters in simpler systems, researchers measure the concentration of the system's components. In a cell, for example, researchers would measure the concentration of its proteins, among other things. Researchers then try to identify the parameters that would result in the closest 'fit' to those concentrations when plugged into the model.

A measure known as an objective function is used to quantify the quality of the 'fit' to the measured concentrations. Simple systems often result in an objective function that looks like a bowl, with the lowest point of the bowl corresponding to the parameters that provide the best or "optimal" fit. All other parameter values correspond to higher points that arc up from the bottom of the bowl. These points correspond to increasingly poor matches to the measured component concentrations as you move further away from the bottom. Robust optimization routines are well adapted to sliding down the sides of these mathematical bowls to identify a functional set of parameters corresponding to the best fit. It can be virtually impossible to identify the optimal set of parameters, but you can often get very close.

But the cyclical nature of oscillatory systems makes it difficult to identify this functional set of parameters, even when using the most robust optimization routines. This is because the repetitive nature of these systems transforms the bowl into something that looks more like a mountain range, with many hills and valleys. This makes it more complicated and time-consuming to work your way toward accurate parameters.

Since these oscillatory systems present a problem for most optimization algorithms, Williams and NC State Ph.D. student Seyedbehzad Nabavi focused on developing methods that would manipulate the surface characteristics of the objective function itself. This new approach factors in the frequency of the concentrations within the system or how often each concentration is repeated to generate a new objective function that mitigates the impact of system oscillations.

"By generating a new objective function that factors in the frequency of the system oscillations, we are able to eliminate many of the hills and valleys, resulting in a surface with the same optimal point, but that is easier to search," Williams says. "This makes it easier for optimization routines to identify a functional working set of parameters that can then be used to predict the activity of the modeled system."

The paper, "A Novel Cost Function for Parameters Estimation in Oscillatory Biochemical Systems," will be presented at the IEEE SoutheastCon in Orlando, Fla., March 15-18. Nabavi is lead author on the paper.


'/>"/>

Contact: Matt Shipman
matt_shipman@ncsu.edu
919-515-6386
North Carolina State University
Source:Eurekalert  

Related biology news :

1. More effective method of imaging proteins
2. New methods for better purification of wastewater
3. New 3-D stem cell culture method published in JoVE
4. New method for stronger dental implants
5. Noninvasive method accurately and efficiently detects risk of Down syndrome
6. Researchers develop new method for creating tissue engineering scaffolds
7. New methodology assesses risk of scarce metals
8. Powerful drugs surprising, simple method could lead to better treatments
9. ISU scientist helps find structure of gene-editing protein named Method of the Year
10. Penn scientists pioneer new method for watching proteins fold
11. Researchers develop new method of cleaning toxins from the oilsands
Post Your Comments:
*Name:
*Comment:
*Email:
Related Image:
New method for estimating parameters may boost biological models
(Date:6/2/2016)... June 2, 2016   The Weather Company , an ... Ads, an industry-first capability in which consumers will be able ... to ask questions via voice or text and receive relevant ... Marketers have long sought an advertising solution ... can be personal, relevant and valuable; and can scale across ...
(Date:6/1/2016)... YORK , June 1, 2016 ... Technology in Election Administration and Criminal Identification to Boost ... to a recently released TechSci Research report, " Global ... By Region, Competition Forecast and Opportunities, 2011 - 2021", ... 24.8 billion by 2021, on account of growing security ...
(Date:5/20/2016)... , May 20, 2016  VoiceIt is excited ... with VoicePass. By working together, VoiceIt ...  Because VoiceIt and VoicePass take slightly different approaches ... increases both security and usability. ... about this new partnership. "This marketing ...
Breaking Biology News(10 mins):
(Date:6/23/2016)... ... June 23, 2016 , ... Mosio, a leader ... “Clinical Trials Patient Recruitment and Retention Tips.” Partnering with experienced clinical research professionals, ... providing practical tips, tools, and strategies for clinical researchers. , “The landscape of ...
(Date:6/23/2016)... , June 23, 2016 Houston Methodist ... the Cy-Fair Sports Association to serve as their ... agreement, Houston Methodist Willowbrook will provide sponsorship support, ... connectivity with association coaches, volunteers, athletes and families. ... the Cy-Fair Sports Association and to bring Houston ...
(Date:6/23/2016)... , ... June 23, 2016 , ... ... announced the launch of the Supplyframe Design Lab . Located in Pasadena, ... explore the future of how hardware projects are designed, built and brought to ...
(Date:6/23/2016)... LONDON , June 23, 2016 ... & Hematology Review, 2016;12(1):22-8 http://doi.org/10.17925/OHR.2016.12.01.22 ... Review , the peer-reviewed journal from touchONCOLOGY, ... the escalating cost of cancer care is placing ... a result of expensive biologic therapies. With the ...
Breaking Biology Technology: