The full text of this article

 

Virtualisation of gene knockout experiments based on kinetic modelling: Escherichia coli as an algorithmic case
by Rudong Li; Guohui Ding; Yixue Li
International Journal of Computational Biology and Drug Design (IJCBDD), Vol. 10, No. 2, 2017

 

Abstract: Since substantial biological studies focus on molecular essentialities (e.g., gene knockout experiments), virtualisation of such studies saves experimental costs and facilitates knowledge acquisition and bio-engineering. Nevertheless, non-quantitative methods are incompetent and the traditional flux-balance analysis (FBA) is less effective at physiological rather than genome scale. In this respect, kinetic modelling can simulate bio-pathway dynamics and enhance functional characterisations of bio-molecules. However, conventional sensitivity or flux control analysis has limited predictive ability for structural perturbations like gene knockouts. Thus we hereby conceived a novel algorithm for in silico evaluating molecular essentialities based on dynamical systems. Exemplified by E. coli central carbon metabolism, our method was accurate. We found that E. coli central metabolic genes could be categorised into four types of essentiality; moreover, E. coli metabolism might be supported by a minimum of six genes. Additionally, comparing with FBA and a previous kinetic-modelling method, our method was more effective.

Online publication date: Sat, 15-Apr-2017

 

is only available to individual subscribers or to users at subscribing institutions.

 
Existing subscribers:
Go to Inderscience Online Journals to access the Full Text of this article.

 
Pay per view:
If you are not a subscriber and you just want to read the full contents of this article, buy online access here.

 
Complimentary Subscribers, Editors or Members of the Editorial Board of the International Journal of Computational Biology and Drug Design (IJCBDD):
Login with your Inderscience username and password:

 

    Username:        Password:         

Forgotten your password?


 
Want to subscribe?
A subscription gives you complete access to all articles in the current issue, as well as to all articles in the previous three years (where applicable). See our Orders page to subscribe.

 
If you still need assistance, please email subs@inderscience.com