neXtProt

Established in 2010, the neXtProt knowledgebase was created to capture insights from emerging omics studies by performing deep curation of clinically relevant disease mutations. It employed cutting-edge semantic technologies to integrate data from genomics, transcriptomics, and proteomics.

Additionally, neXtProt developed advanced tools to facilitate the exploration and querying of this data, making it accessible to both general and specialized protein research. Between 2011 and 2023, it was recognized as the primary reference resource for the Human Proteome Project (HPP). These achievements made neXtProt a powerful tool for advancing our understanding of the human proteome and its implications in health and disease.

After 14 years, neXtProt has reached its end of life and no longer provides data or services. Thank you for your support and trust!

Though neXtProt services have ended, we’ve ensured that its data and tools remain accessible for future research.

Accessing Archived neXtProt Data and Source Code

Retrieve Data on Zenodo

• DOI 10.5281/zenodo.14163587: Latest release (September 2023) with extensive metadata.
• SIB Swiss Institute of Bioinformatics - Biodata Resources Zenodo community: neXtProt data releases prior to September 2023.
• DOI 10.5281/zenodo.14355521: neXtProt functional proteome project .
• DOI 10.5281/zenodo.14355851: Protein kinase function portal.
• DOI 10.5281/zenodo.14356028: Cancer variants portal.
• DOI 10.5281/zenodo.14356359; Ion channels variants portal.

Explore Source Code on GitHub

• Main repository: Comprehensive neXtProt projects and resources.
• Feature Viewer: Interactive protein feature visualization tool.

References

• Zahn-Zabal M, Michel PA, Gateau A, Nikitin F, Schaeffer M, Audot E, Gaudet P, Duek PD, Teixeira D, Rech de Laval V, Samarasinghe K, Bairoch A, Lane L. The neXtProt knowledgebase in 2020: data, tools and usability improvements. Nucleic Acids Res. 2020 Jan 8;48(D1):D328-D334. doi: 10.1093/nar/gkz995. PMID: 31724716 PMCID: PMC7145669
• Adhikari S, Nice EC, Deutsch EW, Lane L, et al. A high-stringency blueprint of the human proteome. Nat Commun. 2020 Oct 16;11(1):5301. doi: 10.1038/s41467-020-19045-9.
• Paladin L, Schaeffer M, Gaudet P, Zahn-Zabal M, Michel PA, Piovesan D, Tosatto SCE, Bairoch A. The Feature-Viewer: a visualization tool for positional annotations on a sequence. Bioinformatics. 2020 May 1;36(10):3244-3245. doi: 10.1093/bioinformatics/btaa055. PMID: 31985787.

Looking for human protein information?

Please refer to:

• human reviewed (Swiss-Prot) data in UniProt
• HPP Portal, a knowledge hub to support the HPP Grand Challenge