|
|
سومین کنفرانس زیست‌شناسی سامانه‌های ایران ؛ 8 و 9 اسفند ماه 1396
|
|
|
| عنوان فارسی |
تبدیل خودکار واکنش های آنزیمی به زیر واکنش های اولیه: روشی با پتانسیل زیاد به منظور مدلسازی سینتیکی متابولیزم در مقیاس ژنوم |
|
| چکیده فارسی مقاله |
|
|
| کلیدواژه‌های فارسی مقاله |
|
|
| عنوان انگلیسی |
Automatic break-down of enzymatic reactions to their elementary steps: A strategy with high potential for genome-scale kinetic modeling of metabolism |
|
| چکیده انگلیسی مقاله |
Genome-scale stoichiometric models of cellular metabolism have been very helpful, but they are not enough. To answer the many questions in the fields of biotechnology, cell biology, molecular biology and medical biology in specific, we need to have insight on the dynamics of metabolism and the machinery behind that. However, it is not easy to make kinetic models of metabolism which are in acceptable agreement with experimental observations. To come up with a relevant rate equation for each enzyme in the network and to find the appropriate kinetic parameters are two big obstacles in the process of making a kinetic metabolic model. Successful examples of such models are limited to tens of reactions. The main question in this work is, “Can we make it easier to develop kinetic models of metabolism, especially in large scale? And How?”. The original idea behind this work refers back to more than a century ago, where enzyme catalyzed reactions were represented at elementary steps of associations and dissociations on which Henri (Henri, 1902), Michaelis and Menten (Michaelis et al., 1913) established their famous formulation. This work also borrows some of the ideas and formulas presented in (Tran et al., 2008), that employs the original idea to establish an algorithm for kinetic modeling of metabolism under the name of ensemble modeling. The main focus in our work was to construct a pipeline for automatic generation of dynamic metabolic models at elementary reactions level by starting from a stoichiometric model, and then to implement that pipeline in a graphical interface to make it easier for the researcher to edit and curate automatically generated reaction mechanisms based on the validated information that might be available for some of the enzymatic reactions. An experimental procedure that might be the most suitable one to be coupled with this kind of modeling is also suggested by authors. For the time being, we could successfully apply our method to small stoichiometric models, consisting of several reactions in which competitive, uncompetitive and mixed inhibition types of enzymatic regulations were present. |
|
| کلیدواژه‌های انگلیسی مقاله |
Kinetic Modeling، Metabolic Network، Genome-Scale، Systems Biology |
|
| نویسندگان مقاله |
محمد جعفر khatibipour | mohammad jafar khatibipour
computational systems bilogy group, department of bioengineering, gebze technical university, gebze, turkey
tunahan çakır | tunahan çakır
computational systems bilogy group, department of bioengineering, gebze technical university, gebze, turkey
|
|
| نشانی اینترنتی |
http://icsb2018.modares.ac.ir/browse.php?a_code=A-10-79-1&slc_lang=fa&sid=1 |
| فایل مقاله |
فایلی برای مقاله ذخیره نشده است |
| کد مقاله (doi) |
|
| زبان مقاله منتشر شده |
en |
| موضوعات مقاله منتشر شده |
|
| نوع مقاله منتشر شده |
|
|
|
|
برگشت به:
صفحه اول پایگاه |
دوره مرتبط |
کنفرانس مرتبط |
فهرست کنفرانس ها
|
