Molecular Systems Biology: A brief Introduction

It is an interdisciplinary field integrating biochemistry, molecular biology, algebra, thermodynamics, linear equations, computer sciences, chemistry and many other interdependent fields. Computational modeling and simulations are at the core of this field.The various goals in systems biology can be achieved by mainly two approaches top down approach, in which we study the properties of complex system from various highthroughput data e.g whole transcripteome, whole proteome. This approach can give information about expression of various genes, behavior and function of many enzymes and  proteins. Bottom up approach is the method by which we design a model by integrating all the basic data from genome sequences , literature, functions of various metabolites, various signaling molecules and all the components that add up any information about the other component present in the model. this approach is very helpful for constructing constraint based models.
The integration of both these approaches is very productive and gives more valid information about the working behavior of organism to be modeled. we can start from genome sequences of an organism and later add all the highthroughput experimental data at later stages of modeling and reconstruction.
Constraint-based reconstruction and analysis: COBRA
All the cellular processes happen because of biochemical reactions taking place in each cell of living organism, thus transforming the one component into other and helping the organism to survive and adapt with any available environment. The biochemical reactions are not much different from ordinary chemical reactions, the difference is only that these reactions take place inside a living cell coded by a particular set of codes from DNA. The constraint-based reconstruction and analysis (COBRA) is an approach by which we can model the biochemical reactions of an organism in the form of  stoichiometric matrix and thus can construct the model of that said organism.
(..............)........(.........)

Algae systems biology: A top down and bottom up aproach

Photosynthesis is  the first systems level process that paved a way for life on planet Green. The process starts with trapping the solar photons that are only source of energy for every living creature. These energy photons are converted into energy rich molecules for the daily life activities of an organism. It starts with absorbing CO2, a green house gas and utilizing H2O in presence of energy photons and chlorophyll to synthesize all the biochemical molecules in a direct or indirect way. Algae have played a key role in the evolution of this process. To understand the process of photosynthesis in a better way it becomes very important to study, how it is co-ordinated in a beautiful way taking into consideration both aspects i.e. top down and bottom up approaches in which algae can be considered  complete system. This system can be named as a macro system which can be divided into many small micro systems. Each micro system will be divide into many compartments. The compartments can be studied for each process and their behavior can be recorded. That means that we will have both approaches to study the complete macro systems and derive inferences and at the same time  studying each compartment of micro system, that can be integrated into system. This whole series of experiments will describe and explain us the systems biology of algae [manuscript under preparation]