The computational and experimental biophysics lab will combine theoretical techniques of non-equilibrium statistical mechanics to make models and predictions along with stress based experiments (such as heat shock, pathogen infection, osmotic stress) performed on the model organism C. elegans (1mm long nematode found commonly in the soil) to answer fundamental questions in science. The lab will be focused on three specific areas. They are:
- Noise in cellular kinetic pathways: Computer simulations and mathematical models based on statistical mechanics will be used to understand how they affect cellular dynamics.
- Stress-response dynamics using C. elegans as a model organism and their connection to survival and behavior. This will incorporate the use of microfluidics and imaging through a microscope along with RNA biology.
- Probing large interaction networks through machine learning. This will involve using and curating large biological public datasets and making predictions.
|Microfluidics based bioimaging with cost-efficient fabrication of multi-level micrometer-sized trenches||Biomicrofluidics||2023|
|2||Khursheed Ahmad Khan
Shoubhik Chandan Banerjee
|Deep-worm-tracker: Deep learning methods for accurate detection and tracking for behavioral studies in C. elegans||Applied Animal Behaviour Science||2023|
|Unveiling Autophagy and Aging through Time-Resolved Imaging of Lysosomal Polarity with a Delayed fluorescent emitter||Chemical Science||2023|
||Extrinsic noise effects on ribosomal traffic during the translation process||Journal of Statistical Mechanics: Theory and Experiment (JSTAT)||2022|
|Lessons Learned from Two Decades of Modeling the Heat-Shock Response||Biomolecules||2022|
|6||Shoubhik Chandan Banerjee
|Persistent Correlation in Cellular Noise Determines Longevity of Viral Infections||The Journal of Physical Chemistry Letters||2022|
|A near analytic solution of a stochastic immune response model considering variability in virus and T cell dynamics.||The Journal of Chemical Physics||2021|
|Transcription factors and chaperone proteins play a role in launching a faster response to heat stress and aggregation.||Computational Biology and Chemistry||2021|