Overview

  • We study biochemical processes using Systems Biology approach. In Systems Biology, we specialize in Stochastic Simulation of biochemical networks. Many chemical and biochemical processes are inherently stochastic in nature. We develop both the theoretical framework and simulation methods for efficient stochastic simulation. In addition, our aim is to train students in Systems Biology tools and fundamentals. We give training in the following tools:

  • (1) Development of Stochastic framework and algorithm
  • (2) Systems Biology Markup Language (SBML)
  • (3) Copasi Software
  • (4) CellDesigner software
  • (5) Modelling of Signal transduction pathways
  • (6) Cytoscape software
  • (7) Systems Biology tool box for MATLAB
  • (8) SBML tool box for MATLAB

Recent Publications

  • Raghav Saxena, V B K Sai Phani Kumar Avanigadda, Raghvendra Singh, Vishal Agarwal (2021) "Ab initio dynamics of gas-phase and aqueous-phase hydrolysis of adenosine triphosphate", International Journal of Quantum Chemistry 121(10), e26615 DOI:10.1002/qua.26615
  • Satyam Gupta, Neeraj Koshta, Raghvendra Singh, Goutam Deo (2021) "Flue Gas Treatment via Dry Reforming of Methane", Catalysis for Clean Energy and Environmental Sustainability, Springer
  • Singh R. (2017) "Aberration in NFkB-IkB binding may cause two states of NFkB activity", CURRENT SCIENCE 113(11) DOI:10.18520/cs/v113/i11/2168-2174.
  • Singh R. (2016) "Central role of PI3K - SYK interaction in fibrinogen-induced lamellipodia and filopodia formation in platelets", FEBS Open Bio DOI:10.1002/2211-5463.12149.
  • Singh R (2016) "Model Predicts That MKP1 and TAB1 Regulate p38α Nuclear Pulse and Its Basal Activity Through Positive and Negative Feedback Loops in Repsonse to IL-1", PLoS ONE doi:10.1371/journal.pone.0157572".
  • Singh R (2013) "Signal Oscillation Is Another Reason for Variability in Microarray-Based Gene Expression Quantification", PLoS ONE 8(1): e54753. doi:10.1371/journal.pone.0054753".
  • Gupta S, Singh R (2012) "Analysis of the Virus Dynamics Model Reveals That Early Treatment of HCV Infection May Lead to the Sustained Virological Response", PLoS ONE 7(7): e41209. doi:10.1371/journal.pone.0041209.
  • Singh, R., Nitsche, J.M. and Andreadis, S.T. (2009) "An Integrated Reaction-Transport Model for DNA Surface Hybridization: Implications for DNA Micro arrays", Annals of Biomedical Engineering, 2009 Jan;37(1):255-69.
  • Singh, R., Lei, P., and Andreadis, S. T. (2009). "PKC-delta binds to E-cadherin and mediates EGF induced cell-scattering", Experimental cell research,July, 2009; doi:10.1016/j.yexcr.2009.07.002.
  • Singh, R. and Andreadis, S. T. (2007). "EGF receptor activation decreases retroviral gene transfer through protein kinase C-delta", Molecular Therapy 2007 Feb; 15(2):369-77.