Systems Biology

Topic 4: Metabolic engineering of methanotrophs for the production of liquid fuels from biogas

Guide:  Prof. Pramod Wangikar.  read more »

Proposing Faculty
Research Area
  • Biochemical Engineering
  • Biomolecular Engineering
  • Modelling
  • Optimisation
  • Systems Biology

Topic 3: Development of synthetic biology tools for cyanobacteria.

Guide:  Prof. Pramod Wangikar.  read more »

Proposing Faculty
Research Area
  • Biochemical Engineering
  • Biomolecular Engineering
  • Data Analysis
  • Modelling
  • Optimisation
  • Systems Biology

Topic 2: Non-stationary 13C-Metabolic flux analysis of non-model organisms.

Guide:  Prof. Pramod Wangikar.  read more »

Proposing Faculty
Research Area
  • Biochemical Engineering
  • Biomolecular Engineering
  • Modelling
  • Systems Biology

State and parameter estimation of ensemble dynamics (TA only)

 read more »

Proposing Faculty
Research Area
  • Computational Biology
  • Data Analysis
  • Identification
  • Modelling
  • Optimisation
  • Systems Biology

Theoretical models to understand evolutionary processes.

In the story of evolution from a single cell (LUCA: https://en.wikipedia.org/wiki/Last_universal_common_ancestor) to complex eukaryotes, there are several missing links. In this project, we aim to develop theoretical and computational models to analyze these missing aspects in our understanding of evolution of life on Earth.  read more »

Proposing Faculty
Research Area
  • Biochemical Engineering
  • Biomolecular Engineering
  • Computational Biology
  • Enzymology
  • Systems Biology

Sympatric speciation experiments in yeast.

New species come into being when an existing species "splits" into two species. This process is called speciation, and is known to occur via two modes - allopatry (literally meaning different place) and sympatry (same place). In allopatry, individuals of a species are separated physically (by a water body, for instance), and thereafter, the two separated groups evolve independently. The precise environmental conditions in the two regions drive these two groups apart with time, and eventually, the two groups speciatte into distinct species.  read more »

Proposing Faculty
Research Area
  • Computational Biology
  • Systems Biology

Modeling and simulation of endoplasmic reticulum stress pathways (TA/FA)

Endoplasmic reticulum (ER) is responsible for many important cellular functions such as
folding of proteins, glycosylation and quality control etc. Many
environmental and genetic perturbations such as hypoxia, glucose deficiency, overload of unfolded protein can lead to ER stress. ER stress has been associated with pathogenesis of many diseases
such as diabetes, neurodegenarative diseases such as Alziemers and
Parkinsons. Further, industrial recombinant mammalian cell lines producting recombinant therapeutics are also subject to ER stress.  read more »

Proposing Faculty
Research Area
  • Biochemical Engineering
  • Biomolecular Engineering
  • Computational Biology
  • Systems Biology

Genomic study of antibiotic resistance mechanisms (TA/FA)

Antibiotics have been critical for the dramatic rise of life expectancy and the fight against many diseases and infections in the past fifty years. However, over the past decade, antimicrobial resistance has emerged as a major public-health crisis. We are using Streptomyces coelicolor and Mycobacterium smegmatis as models to decipher the various mechanisms employed by bacteria to counter antibiotics. A transcriptomic study using whole-genome microarrays revealed a combination of mechanisms that Streptomyces uses to counter fluoroquinolones.  read more »

Proposing Faculty
Research Area
  • Biomolecular Engineering
  • Systems Biology

Analyzing whole body metabolism in Humans for characterizing dissease states

Whole body metabolism in various tissues is tightly regulated through several signalling networks. The project deals with analyzing the interconnections between the signaling pathway and the metabolism. Structural and parametric perturbations for various lifestyle conditions such as diet, exercise, infection will be studies to link the cause and effect for various lifestyle related diseases. An extensive model is already developed. Several what if situations and analysis using the model will be the scope.

Proposing Faculty
Research Area
  • Systems Biology

Quantification of metabolism in Escherichia coli under uncertain environments

The project deals with characterizing metabolism of e. coli under nutritional shifts and under changing environmental conditions such as temperature and pH. The project involves both wet lab and modeling genetic and metabolic networks. The issue of optimal phenotypic shift under different conditions will be characterized.

Proposing Faculty
Research Area
  • Biochemical Engineering
  • Systems Biology