MODELLING AND FLUX BALANCE ANALYSIS OF THE HUMAN APOPTOTIC PATHWAY

  • Udayakumar Mani Department of Bioinformatics, bDepartment of Biotechnology, Sastra University, Thanjavur 613401, Tamil Nadu, India
  • Ajithavalli C Sastra University
  • Vignesh K Sastra University
  • Sai Mukund R Sastra University

Abstract

Objective: Flux balance analysis is one method to analyse genome-scale models for metabolism and transcriptional regulation. Her we use the apoptotic pathway, the most widely used FBA to perform a mathematical model also analyses the flux balance to study the relationship between the flux and the genes involved in the extrinsic pathway.

Methods: KEGG was used to obtain information of pathways and related ligands and genes. Biocyc was considered for its intricacy in explanation of the mechanisms of pathways. A specific wing of Biocyc called humancyc was used for human related pathways. SBML was used to sort the several pathways.

Results: The pathway was modelled using SBML version 2 level 1 specifications which are the most commonly used version making FBA one of the best methods for studying this process. Based on FBA, the genes like bid and cyc were classified as essential and non-essential. All these details suggest that our model is sensible scientifically. This technique can satisfy researchers to uncover several biologically complex pathways computationally. This is a more efficient and less time consuming process.

Conclusion: With the availability of experimental biochemical data, like the concentration or the ratio of these caspases in a cell, the accuracy of this method can be improved. In our method, the entire model is considered to be present in a single compartment. Separate compartments for the inclusion of inhibitors and activators can be added to represent the pathway more effectively. A more complex model including the entire apoptotic pathway can be modelled to determine all possible ways of inhibiting apoptosis.

 

Keywords: Apoptosis, Metabolic pathway modelling, Flux Profile, KEGG, System Biology Markup Language

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Author Biographies

Udayakumar Mani, Department of Bioinformatics, bDepartment of Biotechnology, Sastra University, Thanjavur 613401, Tamil Nadu, India
Dept. of Bioinformatics and Assistant Professor
Ajithavalli C, Sastra University
Dept. of Bioinformatics
Sai Mukund R, Sastra University
Dept. of Bioinformatics and B.Tech Student

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How to Cite
Mani, U., A. C, V. K, and S. M. R. “MODELLING AND FLUX BALANCE ANALYSIS OF THE HUMAN APOPTOTIC PATHWAY”. International Journal of Pharmacy and Pharmaceutical Sciences, Vol. 7, no. 13, Aug. 2015, pp. 112-6, https://innovareacademics.in/journals/index.php/ijpps/article/view/4961.