Legal Notice

Imprint and Publishing Notes

See the imprint and publishing notes for this and other Fraunhofer SCAI web applications.

Fraunhofer SCAI Terms and Conditions

By using any services of this web application, you accept our Terms and Conditions of Use.

Policies of Other Resources

Resources from KEGG, Reactome, WikiPathways, and PathBank have been used to build this package and application.

KEGG

License

KEGG KGML files are downloaded via the KEGG API for academic purposes (Terms and conditions). More info at Bio2BEL KEGG.

References
  • Kanehisa, M., Sato, Y., Furumichi, M., Morishima, K., and Tanabe, M.; New approach for understanding genome variations in KEGG. Nucleic Acids Res. 47, D590-D595 (2019).
  • Kanehisa, M; Toward understanding the origin and evolution of cellular organisms. Protein Sci. 28, 1947-1951 (2019).
  • Kanehisa, Furumichi, M., Tanabe, M., Sato, Y., and Morishima, K.; KEGG: new perspectives on genomes, pathways, diseases and drugs. Nucleic Acids Res. 45, D353-D361 (2017).
  • Kanehisa, M., Sato, Y., Kawashima, M., Furumichi, M., and Tanabe, M.; KEGG as a reference resource for gene and protein annotation. Nucleic Acids Res. 44, D457-D462 (2016).
  • Kanehisa, M. and Goto, S.; KEGG: Kyoto Encyclopedia of Genes and Genomes. Nucleic Acids Research. 28, 27-30 (2000).

Reactome

License

Reactome RDF files are downloaded via the Reactome API for academic purposes (Terms and conditions).

References
  • Jassal B, et al. The reactome pathway knowledgebase. Nucleic Acids Research. 48(D1), D498-D503 (2020).
  • Fabregat A, et al. The Reactome Pathway Knowledgebase, Nucleic Acids Research. 46(D1), D649–D655 (2018).
  • Croft D, et al. “The Reactome Pathway Knowledgebase.” Nucleic Acids Research. 42(Database issue), D472–D477 (2014).

WikiPathways

License

WikiPathways RDF files are downloaded via WikiPathways FTP server for academic purposes (Terms and conditions).

References
  • Slenter DN, et al. WikiPathways: a multifaceted pathway database bridging metabolomics to other omics research. Nucleic Acids Research. 46(D1), D661-D667 (2017).
  • Kutmon M, , et al. WikiPathways: capturing the full diversity of pathway knowledge Nucl. Acids Research. 44, D488-D494 (2016)
  • Kelder T, van Iersel MP, Hanspers K, Kutmon M, Conklin BR, Evelo C, Pico AR. WikiPathways: building research communities on biological pathways. Nucleic Acids Research. 40(Database issue):D1301-7 (2012).

PathBank

License

PathBank pathways and their associated genes are downloaded via their download page. Visit their website for details on the terms and conditions of its use.

References

Wishart DS, Li C, Marcu A, et al. PathBank: A Comprehensive Pathway Database for Model Organisms. Nucleic Acids Res. 2020 Jan 8;48(D1):D470-D478.