Research

I am final year PhD scholar at Dr. Gupta Lab, DA-IICT

Current Work:

My current research interest is biological coding theory and DNA computing. During my doctoral studies, I have worked on designing DNA codes and their applications. First part includes designing DNA codes from the algebraic ring. Second part includes designing DNA using constrained coding and Golay subcode for DNA data storage.

DNA code design problem belongs to the area of DNA computing. DNA computing deals with using DNA for computation. For these, DNA strands with particular properties (DNA constraints) are required that avoids errors during computation. Main objective is to design DNA codes satisfying these DNA constraints. In my work, I have proposed methods to design DNA codes satisfying these constraints using algebraic coding. In particular, DNA codes from the ring Z_4+wZ_4 is developed.

Another part of the work includes DNA codes for DNA data storage. Two methods are proposed to develop DNA codes which satisfy no runglength (avoiding occurrence of repeated bases in a DNA) and fixed GC weight (number of Gs and Cs in a DNA) which are very important for DNA storage.

I have also worked as a graduate mentor for project in designing DNA nano-structures using DNA origami and DNA bricks. DNA self assembly deals with the molecular programming that is about designing of the geometrical object by the construction of two and three dimensional nano-structures by DNA using different DNA self assembly approaches.

I am interested in research problems which deals wit designing of DNA codes feasible to various applications. I am looking for opportunities to work in project which uses coding theory as a tool for biological applications.

Past work:

During my internship at NCCS, Pune, I have worked in the field of synthetic biology. In particular building circuits and studying their behavior in cells was a major goal of my study. In this work the construction of genetic circuit for the targeted enzyme inositol phosphorylceramide synthase belonging to the protozoan parasite Leishmania was given. To explore the dynamic nature of the circuit designed, simulation was done followed by circuit validation by qualitative and quantitative approaches. Genetic Circuit was designed and simulated using Tinker cell and desired behavior for the steady state analysis was studied. Bi-stability behavior was observed in the constructed circuit which was validated using mathematical approaches using modules in R by Bayesian network and Boolean network construction. The genetic circuit designed for inositol phosphorylceramide synthase shows responsiveness, oscillatory and bistable behavior, together with intrinsic robustness.

Projects at Gupta Lab

DNA codes

DNA codes tables list by Oliver King and Philippe Gaborit (2009) .

DNA Codes tables updated by D. Tulpan, D.H. Smith and R. Montemanni (2012).

Optimal Insertion-Deletion Correcting Codes updated by S.Houghten (2008)

Optimal Fixed-Length Binary Edit-Metric Codes updated by S.Houghten (2008)