Ratul Chowdhury
Title(s):
Assistant Professor, Black and Veatch Building a World of Difference Faculty Fellow
Office
5009 ATRB (Nanovaccine Institute)
2213 Pammel Drive
Ames, IA 50011
Information
Links
Chowdhury Lab Website Chowdhury lab is a part of the Nanovaccine Institute (5th Floor) Publications // Media-coverage // Patents (see here)
Education
PhD, Chemical Engineering, 2019, Penn State University.
BE, Chemical Engineering, 2013, Jadavpur University, India
Experience
Postdoctoral Fellow, Harvard Program in Therapeutic Sciences, 2020-2022, Harvard Medical School
Interest Areas
- Computational protein design, Protein dynamics
- Hybrid optimization with ML and integer-programming
- Structure-guided metabolic engineering
- Tailoring enzyme activity
- Channel protein for separations
- Antibody design
- Bio-inspired material design for green chemistry
- Bio-based separation of rare-earth elements (lanthanides)
Teaching
- S24// CHE310 (Computational Methods in Chemical Engineering)
- F24// CHE440 (Biomed. Appln in Chemical Engineering)
- F24// HONS 3210-4 (Machine Learning in Protein Biology)
- F23// CHE440 (Biomed. Appln in Chemical Engineering)
- F22// CHE310 (Computational Methods in Chemical Engineering)
Publications
( * – as corresponding author )
- * 2025 // Current Opinion in Biotechnology — Noor, M. S. et. alNext-generation metabolic models informed by biomolecular simulations
- * 2025 // Computational and Structural Biotechnology Journal — Sajeevan, K. A. et. alComputationally derived structural insights into Rare Earth selectivity in lanmodulin and its variants
- * 2025 // Plant Physiology — Chowdhury, R. et. al
Fermi calculations enable quick downselection of target genes and process optimization in photosynthetic systems
- * 2025 // Animal Frontiers — Chowdhury, R. et. al
Computational approaches for enteric methane mitigation research: from fermi calculations to artificial intelligence paradigms
- 2024 // Scientific Reports — Malla, S. et. al
Dissecting metabolic landscape of alveolar macrophage
- 2024 // Chemical Reviews — Peng, H. et. al
Biomimetic Materials to Fabricate Artificial Cells
- * 2024 // Computational and Structural Biotechnology Journal — Dey, S. et. al
Identification and biophysical characterization of epitope atlas of Porcine Reproductive and Respiratory Syndrome Virus
- 2024 // Biotechnology and Bioengineering — Ferdous S. et. al
Reinforcement learning-guided control strategies for CAR T-cell activation and expansion
- 2024 // ACS Nano — Uthaman, S. et. al
Inhibiting the cGAS-STING Pathway in Ulcerative Colitis with Programmable Micelles
- * 2024 // ICASSP 2024 — Lin J. et. al
Distributed Stochastic Contextual Bandits for Protein Drug Interaction
- 2023 // Iscience — Chowdhury, N.B. et. al
A multi-organ maize metabolic model connects temperature stress with energy production and reducing power generation
- * 2023 // Cell Systems — Samineni, L. et. al
Protein engineering of pores for separation, sensing, and sequencing
- 2023 // Journal of Experimental Botany — Choi, S. et. al
A single amino acid change led to structural and functional differentiation of PvHd1 to control flowering in switchgrass
- 2023 // Metabolic Engineering — Jindra, M. et. al
Evaluation of strategies to narrow the product chain-length distribution of microbially synthesized free fatty acids
Article
* 2023 // Frontiers in Bioeng. and Biotech — Chowdhury, R.
Advances in protein structure, function, and design
- 2021 // Nature Biotechnology — Chowdhury,R. + Bouatta,N. + Biswas,S. et. al
Single-sequence protein structure prediction using language models from deep learning
Article Nature News |ScienceMag | Forbes AI
- 2022 // Proteins — Boorla,VS. + Chowdhury,R. et. al
De novo design and Rosetta-based assessment of high-affinity antibody variable regions (Fv) against the SARS-CoV-2 spike receptor binding domain (RBD)
- 2022 // NPJ Clear Water — Samineni, L. et. al
Effective pathogen removal in sustainable natural fiber Moringa filters
- 2022 // Applied & Environmental Microbiology — Oh,C. + Chowdhury,R. et. al
Inactivation mechanism and efficacy of grape seed extract for Human Norovirus surrogate
- 2021 // Genome Medicine — Patiño-Galindo, J. et. al
Recombination and lineage-specific mutations linked to the emergence of SARS-CoV-2
- 2021 // Nature Nanotechnology — Zeng, H. et. al
Foldamer-based ultrapermeable and highly selective artificial water channels that exclude protons
Article ScienMag | SciTech Daily
- 2021 // PNAS — Chen, C. et. al
Computational prediction of the effect of amino acid changes on the binding affinity between SARS-CoV-2 spike RBD and human ACE2
- 2020 // Computational and Structural Biotechnology Journal — Chowdhury, R. + Boorla, VS. et. al
Computational biophysical characterization of the SARS-CoV-2 spike protein binding with the ACE2 receptor and implications for infectivity
- 2020 // Structure — Chowdhury, R. et. al
IPRO+/−: Computational Protein Design Tool Allowing for Insertions and Deletions
- 2020 // Nature Nanotechnology — Song, W. et. al
Artificial water channels enable fast and selective water permeation through water-wire networks
Article Nature | UT Austin | Water Canada
- 2020 // Protein Engineering, Design and Selection — Wang, Z. et. al
Engineering sensitivity and specificity of AraC-based biosensors responsive to triacetic acid lactone and orsellinic acid
- 2020 // Nature Materials — Tu, YM. et. al
Rapid fabrication of precise high-throughput filters from membrane protein nanosheets
Article Technology Networks | Science Daily
(Publications older than 2020 not included)
Primary Strategic Research Area
Engineered Medicine