Promita Chakraborty

"We cannot teach people anything; we can only help them discover it within themselves." - Galileo Galilei

About


Vision

Promita Chakraborty is a scientist and inventor with an eye for nature. Her vision is to design seamless interactive modeling and computing environments between physical manipulatives of biological systems (governed by their shape, dynamics and functions), the computer, the supercomputer and the cloud. With some help from 3D printers, she wants to precisely design and build scientifically accurate physical models of nano- to macro-scale biological and physical systems that can serve as a continuum between technolgy and human intuition for logic and reason. Under this broad umbrella, she has invented Peppytides and initiated a new field called Physical Biomodeling as a part of her doctoral work. Peppytides is a to-scale physical model of the polypeptide chain that can fold into various motifs and secondary & tertiary structures of proteins. Because of its flexibility and accurate scaling, Peppytides is a model that is first of its kind.

These concepts can be expanded to a new field, Physical Scientific Computing and Modeling, of even greater scope to build scientific tools and models that measure and compute with accurate, scaled, dynamic physical models exploring unsolved scientific problems. For example, Peppytide models explore The Protein Folding Problem.

Bio

Dr. Promita Chakraborty is a scientist, inventor and computer engineer who has initiated a new field called Physical Scientific Computing and Modeling, a special case being Physical Biomodeling. It is an unexplored space of study at the intersection of natural sciences, computational science and precision physical models.

After PhD she founded QuezyLab, a research-based-startup company with a vision to connect the macro-physical world to the nano-world of science without losing accuracy, functionality and dynamics of atomic interactions. With the help of 3D printing technology and her vision for dynamic folding macromolecules, she invented Peppytides and initiated the new field of Physical Biomodeling as a part of her doctoral work. Peppytides is a to-scale physical model of the polypeptide chain that can fold into various motifs and secondary & tertiary structures of proteins. Because of its flexibility and accurate scaling, Peppytides is a model that is first of its kind. She has worked as a Research Associate at the Molecular Foundry at Berkeley Lab (LBNL) (2011-2014). During her time at Virginia Tech (2008-2011) and then at Berkeley Lab, she initiated and implemented the Peppytide project as a pioneering work for accurate physical models for protein folding. This is a vision that she had carried forward from her reflections, realizations and research experiences at Virginia Tech as well as LSU (2005-2008) where she did her MS working in parallel molecular dynamics code with proteins and amino acid molecules as test cases in Grid Computing environments (paper). She coined the terms Peppytides, PeppyChains, Physical Biomodeling, Physical Scientific Computing and QuezyLab, and is on her way to ePeppytides and more.

She received PhD in computer science in 2014 from Department of Computer Science, Virginia Tech, Blacksburg, while working at Berkeley Lab. She has received Berkeley Lab's 2014 Director's Award for Exceptional Achievement for outreach with Peppytides and its invention. Her work has been covered in C&EN, MAKE Magazine and Berkeley Science Review. She had been invited to speak at numerous national and international venues. She has exhibited at various science and STEM fairs including Maker Faire. She received MS in Computer Science from Louisiana State University Baton Rouge, USA, working on HPC algorithms for molecular dynamics of proteins and amino acids. She received BS (Mathematics Major, Physics/Chemistry Minor) from University of Calcutta. She has worked as a project-based researcher at Indian Statistical Institute (2003-2005) and as a software engineer at Siemens, Kolkata (2005). She immigrated from Kolkata (also called Calcutta), India, to United States in 2005, and is a Bengali by origin, speaking bangla. She is a permanent resident of USA, currently located at the San Francisco Bay Area in California.


Appointments

Nov 2014 - present Scientist and Founder QuezyLab, quezylab.com, peppytides.org, Silicon Valley R&D of next versions of Peppytides; working on other biosystems based on the principles of Physical Biomodeling
Jan 2012 - Jul 2014 Research Associate Molecular Foundry, Materials Sciences Division (MSD), Lawrence Berkeley National Laboratory (LBNL), Berkeley Pioneered the invention and implementation of physical models of polypeptides / proteins (Peppytides)
Dec 2013 - Jul 2014 Scientist-In-Residence Bio/Nano/Programmable Matter Group, Autodesk Research, San Francisco Explored: Interactions between Peppytides and CAD-based computational tools




QuezyLab | Peppytides |

Molecular Foundry | Berkeley Lab |

CS@VT | VT| CCT@LSU

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