How to Cite EnteroBase?
If you use data or metadata from EnteroBase, or perform analyses based on these data, please cite the following:
Hierarchical Clustering (HierCC)
- Zhou Z, Charlesworth J, Achtman M. (2021). HierCC: A multi-level clustering scheme for population assignments based on core genome MLST, Bioinformatics, 37(20):3645–3646.
EnteroBase User's Guide
- Zhou Z, Alikhan NF, Mohamed K, the Agama Study Group, Achtman M (2020). The EnteroBase user's guide, with case studies on Salmonella transmissions, Yersinia pestis phylogeny, and Escherichia core genomic diversity, Genome Research, 30:138-152.
GrapeTree
- Zhou Z, Alikhan NF, et al. (2018). GrapeTree: visualization of core genomic relationships among 100,000 bacterial pathogens, Genome Research, 28:1395-1404.
Publications Using EnteroBase
- Kolte B, Nübel U.(2024) Genetic determinants of resistance to antimicrobial therapeutics are rare in publicly available Clostridioides difficile genome sequences, Journal of Antimicrobial Chemotherapy, Volume 79, Issue 6, June 2024, Pages 1320–1328.
- Frentrup M, Zhou Z, et al. (2020). A publicly accessible database for Clostridioides difficile genome sequences supports tracing of transmission chains and epidemics, Microbial Genomics, 6: e000410.
- Achtman M, Zhou Z, Alikhan NF, et al. (2020). Genomic diversity of Salmonella enterica - The UoWUCC 10K genomes project, Wellcome Open Research, 5:223.
- Alikhan NF, Zhou Z, Sergeant MJ, Achtman M. (2018). A genomic overview of the population structure of Salmonella, PLoS Genetics, 14(4): e1007261.
Image credits
- Mycobacterium NIAID, CC BY 2.0, via Wikimedia Commons
- Moraxella CDC/Dr. W.A. Clark , CC0, via Wikimedia Commons
- Yersinia Jennifer Oosthuizen, Public domain, via Wikimedia Commons