Protocol for constructing correlation-based molecular networks from large-scale untargeted metabolomics data.

Authors

Huang Lin, Lijun Zhang, Ali Lotfi, Alan Jarmusch, Iris Lee, Adam Kim, James T Morton, Alexander Aksenov

Published in

STAR protocols. Volume 7. Issue 4. Pages 104956. Nov 10, 2026. Epub Nov 10, 2026.

Abstract

Here, we present a computational protocol for constructing correlation-based molecular networks from untargeted metabolomics data using MetVAE, a variational autoencoder-based framework. We describe steps for importing metabolomics features and sample metadata and for adjusting for compositionality, missingness, confounding, and high dimensionality. We then detail procedures for estimating sparse metabolite correlations and exporting GraphML files for network visualization in Cytoscape. By complementing spectral similarity networks, this protocol captures functional relationships reflected in cross-sample correlations.

PMID:
43013398
Bibliographic data and abstract were imported from PubMed on 12 Nov 2026.

Read full publication at:
Please sign in to see all details.

Stats

1-terrible, 9-excellent. How would you rate this publication? Sign in in to submit your rating.

Post a comment

You need to be signed in to post comments. You can sign in here.

Comments

There are no comments yet.