# Collaborative Research: FET: Medium: Algorithmic Shape Encoding at the Nanoscale

> **NSF 01002526DB NSF RESEARCH & RELATED ACTIVIT** · University of South Florida (FL) · $316,760

## Abstract

Algorithms permeate our modern world, driving everything from navigation, information storage, and data retrieval. In contrast, biological information is inherently physical, carried by molecules whose shapes determine their interactions with the environment. This NSF-funded program aims to explore and harness the interface between the deoxyribonucleic acid (DNA) “software” and the geometric “wetware” of molecules. The research will begin by developing mathematical tools to distinguish molecules based on their 3D shapes and structures. These tools will then be used to create a new programming framework: “algorithmic shape encoding.” Using small DNA tiles as modular pieces in a molecular-scale 3D jigsaw puzzle, the team will construct increasingly complex structures—drawing inspiration from nature’s ability to link form and function. The expected outcomes include breakthroughs in self-assembling materials, biocomputing, and optical communication systems. In addition to scientific discovery, this program will foster interdisciplinary training across mathematics, engineering, and chemistry from high school to the postdoctoral levels. 

DNA, with its predictable structure and ability to self-organize at nanometer precision, offers a powerful platform for designing next-generation materials. This project builds on the well-established tensegrity triangle motif to create a diverse set of 3D DNA motifs that self-organize into authentic 3D DNA building blocks. In Aim 1—Unit Design:

## Key facts

- **NSF award ID:** 2505771
- **Awardee organization:** University of South Florida (FL)
- **SAM.gov UEI:** NKAZLXLL7Z91
- **PI:** Natasa Jonoska
- **Primary program:** 01002526DB NSF RESEARCH & RELATED ACTIVIT
- **All programs:** MEDIUM PROJECT, BIO COMPUTING
- **Estimated total:** $316,760
- **Funds obligated:** $316,760
- **Transaction type:** Standard Grant
- **Period:** 09/01/2025 → 08/31/2028

## Primary source

NSF Award Search: https://www.nsf.gov/awardsearch/showAward?AWD_ID=2505771

## Citation

> US National Science Foundation, Award 2505771, Collaborative Research: FET: Medium: Algorithmic Shape Encoding at the Nanoscale. Retrieved via AI Analytics 2026-06-08 from https://api.ai-analytics.org/grant/nsf/2505771. Licensed CC0.

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