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Related Experiment Video

Updated: May 10, 2026

Efficient Sampling of Genetically Encoded Biosensor Design Space Enabled with a Design of Experiments and Automation Workflow
08:58

Efficient Sampling of Genetically Encoded Biosensor Design Space Enabled with a Design of Experiments and Automation Workflow

Published on: October 17, 2025

Nonlinear dimensionality reduction and Bayesian optimization for accelerating design of materials.

Muhammad Osman Nadeem Farooqui1, Isaac Y Miranda-Valdez2, Tero Mäkinen2

  • 1Department of Applied Physics, Aalto University, P.O. Box 15600, 00076, Espoo, Finland. muhammad.farooqui@aalto.fi.

Scientific Reports
|May 8, 2026
PubMed
Summary
This summary is machine-generated.

Bayesian optimization (BO) combined with dimensionality reduction (DR) methods like UMAP and t-SNE efficiently optimizes biobased foam formulations. This data-efficient approach identifies high-performing materials by reducing complex property spaces.

Keywords:
Bayesian optimization (BO)Dimensionality reduction (DR)Gaussian process (GP)Principal component analysis (PCA)T-distributed stochastic neighbor embedding (t-SNE)Uniform manifold approximation and projection (UMAP)

Related Experiment Videos

Last Updated: May 10, 2026

Efficient Sampling of Genetically Encoded Biosensor Design Space Enabled with a Design of Experiments and Automation Workflow
08:58

Efficient Sampling of Genetically Encoded Biosensor Design Space Enabled with a Design of Experiments and Automation Workflow

Published on: October 17, 2025

Area of Science:

  • Materials Science
  • Chemical Engineering
  • Data Science

Background:

  • Optimizing biobased foam formulations is complex due to costly experiments and high-dimensional property spaces.
  • Bayesian optimization (BO) with Gaussian process regression (GPR) offers data-efficient experimental guidance but is sensitive to input dimensionality.

Purpose of the Study:

  • To evaluate nonlinear dimensionality reduction (DR) methods (t-SNE, UMAP) against PCA for optimizing biobased foam formulations.
  • To assess the effectiveness of DR-assisted BO in identifying high-yield-stress regions and reconstructing optimal formulations.

Main Methods:

  • Utilized a dataset of 26 methylcellulose-cellulose fiber foam formulations with rheological and mechanical data.
  • Trained Gaussian processes (GPs) on low-dimensional representations from PCA, t-SNE, and UMAP.
  • Applied Bayesian optimization (BO) to latent representations and mapped compositions to reduced coordinates for formulation reconstruction.

Main Results:

  • All DR methods, when integrated with BO, identified high-performing foam formulations with yield stress comparable to the experimental optimum.
  • Principal Component Analysis (PCA) served as a baseline, while nonlinear methods (t-SNE, UMAP) showed comparable performance when tuned.
  • Nonlinear DR-assisted BO proved effective in navigating the complex formulation space.

Conclusions:

  • Nonlinear dimensionality reduction combined with Bayesian optimization provides a data-efficient framework for optimizing soft-matter materials.
  • This approach facilitates the exploration of complex formulation spaces, guiding the discovery of materials with desired rheological properties.