How to do GO enrichment analysis for Klebsiella pneumonia?

Question

[Trinh]

Does anyone know how to do GO enrichment analysis for Klebsiella pneumonia? I am trying it but I cannot find the suitable tools and database for K. pneumonia. Thank you very much!

[Marco Pannone]

Maybe this could help: https://biocyc.org/KPNE507522/class-tree?object=Gene-Ontology-Terms

Answer 1

[geneontologyhelp]

The PANTHER tool, which powers the EA widget found on the GO's homepage (http://geneontology.org/) supports over 900 genomes including Klebsiella pneumoniae ozaenae, Klebsiella pneumoniae subsp pneumoniae ATCC 700721, Klebsiella pneumoniae subsp pneumoniae HS11286, and Klebsiella pneumoniae subsp rhinoscleromatis. You can find the full tool at http://www.pantherdb.org/, and Box 2 of PANTHER's Nature Protocol paper explains how to use the PANTHER tool for any genome, even if it's not one of the genomes in the dropdown.

See also

• http://geneontology.org/docs/faq/#enrichment-analysis
• http://geneontology.org/docs/go-enrichment-analysis/
• https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6519457/

[Trinh]

Thank you very much for your response. But I seemly cannot do it because my data use quite an old GID number from Klebsiella quasipneumoniae ATCC 700603. The format is like below. I cannot transform them into any uniprotID and other types of ID. Please let me know if you can handle this type of ID. Thank you very much! EMR14886 EMR14931 EMR14962 EMR14964 EMR14988 EMR15031 EMR15057

[Antonio R. Franco]

Take a look to the uniprot conversion tool Uniprot convertion tool

[Trinh]

Thank you, I have already tried uniprot before, but there is nothing can map with those EMR14886 EMR14931 EMR14962 EMR14964 EMR14988 EMR15031 EMR15057 I think there is somewhere in UniProt that can convert, but I cannot find them.