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. 2024 May 29;52(W1):W415–W421. doi: 10.1093/nar/gkae456

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© The Author(s) 2024. Published by Oxford University Press on behalf of Nucleic Acids Research.

This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial License (https://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com

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Figure 1. — New data and support for metabolomics. (A) WebGestalt 2024 supports 16 ID types for metabolites with automatic ID detection. (B) Choosing all metabolites in WikiPathways as the reference/background set in ORA results in many enriched pathways not found in GSEA. Limiting the reference set to all experimentally quantified metabolites increases the concordance with GSEA. (C) WebGestalt provides colored pathway maps for WikiPathways and KEGG. For GSEA analysis, identified metabolites are shaded by their input values, as shown in the down-regulated (orange-shade) metabolites in the TCA cycle pathway. (D) WebGestalt 2024 adds tens of thousands of pathways from Pathway Figure OCR for six organisms. (E) WebGestalt 2024 adds 11 new cancer networks generated from CPTAC data and a total of 6488 modules.