top of page

Resume

Research Experience

University of Pennsylvania – Postdoctoral Fellow                                             Aug 2023– Aug 2025
Supervisor: Prof. Cesar de la Fuente

  • Studied antimicrobial resistance (AMR) and antimicrobial peptides (AMP) using various methods like simulations, bioinformatics, and data mining.

  • Performed simulation on lipid bilayer and AMP system to study cell penetration viability and activity of AMPs against multiple bacterial strains.

  • Performed enhanced sampling simulations of the lipid-peptide system to study the free energy of various lipid bilayers.

  • Mined the intrinsically disordered proteome to find active AMPs in different bacterial strains. 

  • Worked on various collaborative projects on AMR, tumor immunity, and immunomodular activities.

IIT Bombay – Research Scholar, Associate and Postdoctoral Fellow                   Jan 2017–Jul 2023
Supervisor: Prof. Ranjith Padinhateeri

  • Studied the role of non-specific interaction in the role of phase-separation of intrinsically disordered proteins.

  • Simulated the phase-separation of protein and DNA-like polymer to understand the effect of phase-separation in the DNA-repair mechanism.

  • Modeled and simulated the HP1 protein to understand the role of few interacting regions in heterochromatin formation.

  • Collaborated with the experimental group to study the effect of protein interaction in the folding of IDP, alpha-synuclein.

Education

Ph.D., Computational Biophysics

Indian Institute of Technology Bombay, Mumbai, India

Jan 2017 – Apr 2023
Supervisor: Prof. Ranjith Padinhateeri

 

B.Tech., Bioinformatics   

SASTRA University, Tanjore, India

Jul 2012 – May 2016
                                 

Teaching Assistant in Courses:

  • Mathematical Biology

  • Modeling Biological Systems and Processes

​​​

NPTEL Teaching Assistant:

  • Introductory Mathematical Methods for Biologists (2020).

  • Introductory Mathematical Methods for Biologists (2021)

Teaching Experience

Conferences/Poster/Talks

•    Invited Talk at National Institute of Technology, AP, India, May 2026
•    Invited Talk at CESGA, Spain (Virtual), Oct 2025
•    Invited Talk at Biocogniz Academy, India (Virtual), Dec 2024
•    Invited Talk at University of Pennsylvania, USA, Mar 2023
•    IDPosters22 by IDP-Seminars, Nov 2022
•    EMBO Workshop on Physics of cells: Physcell2022, Ein Gedi, Sep 2022
•    International School on Biological Physics of Cells, Weizmann Institute of Science, Sep 2022
•    66th Annual Biophysical Society Annual Meeting, Mar 2022
•    Multiscale simulation & math. modeling of complex biological systems, JNU India, Sep 2021
•    CompFlu 2019, IISER Bhopal, Nov 2019
•    Conference on Mathematical Biology, IMSC Chennai, Nov 2018
•    National symposium on Frontiers in Modern Biology, IISER Kolkata, Jan 2018

Skills & Expertise

​Programming languages: C, C++
Scripting languages: Python, shell script, tcl
Softwares simulations: LAMMPS, NAMD, GROMACS
Visualization Softwares: VMD, Pymol, Ovito
Operating Systems: Linux (Ubuntu), Windows, MacOS

  • LinkedIn
  • Twitter

Follow Me

© 2023 By Rakesh Krishnan.
Proudly created with Wix.com

bottom of page