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Detecting Sequence Homology at the Gene Cluster Level with MultiGeneBlast
Open accessAbstract
The genes encoding many biomolecular systems and pathways are genomically organized in operons or gene clusters. With MultiGeneBlast, we provide a user-friendly and effective tool to perform homology searches with operons or gene clusters as basic units, instead of single genes. The contextualization offered by MultiGeneBlast allows users to get a better understanding of the function, evolutionary history, and practical applications of such genomic regions. The tool is fully equipped with applications to generate search databases from GenBank or from the user's own sequence data. Finally, an architecture search mode allows searching for gene clusters with novel configurations, by detecting genomic regions with any user-specified combination of genes. Sources, precompiled binaries, and a graphical tutorial of MultiGeneBlast are freely available from http://multigeneblast.sourceforge.net/.
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MUSCLE: multiple sequence alignment with high accuracy and high throughput
Edgar, R. C. (2004) · Nucleic Acids Research · doi:10.1093/nar/gkh340 · Cited by 44,662
BLAST+: architecture and applications
Camacho, C., Coulouris, G., Avagyan, V., Ma, N., Papadopoulos, J., Bealer, K., & Madden, T. L. (2009) · BMC Bioinformatics · doi:10.1186/1471-2105-10-421 · Cited by 22,074
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Insights into Secondary Metabolism from a Global Analysis of Prokaryotic Biosynthetic Gene Clusters
Cimermancic, P., Medema, M. H., Claesen, J., Kurita, K., Wieland Brown, L. C., Mavrommatis, K., Pati, A., Godfrey, P. A., Koehrsen, M., Clardy, J., et al. (2014) · Cell · doi:10.1016/j.cell.2014.06.034 · Cited by 981
Self-citationThe evolution of genome mining in microbes – a review
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Metadata
- Authors
- Medema, M. H., Takano, E., & Breitling, R.
- Venue
- Molecular Biology and Evolution
- Publisher
- Oxford University Press (OUP)
- Published
- 2013-02-14
- Volume
- 30
- Issue
- 5
- Pages
- 1218-1223
- ISSN
- 0737-4038 (ISSN-L)
- 1537-1719
- OpenAlex
- W2171908015
- Cited by
- 350
- References
- 2
- FWCI
- 5.51
- Type
- journal article
- Language
- en
- Open access
- hybrid
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- Medema, M. H., Takano, E., & Breitling, R. (2013). Detecting Sequence Homology at the Gene Cluster Level with MultiGeneBlast. Molecular Biology and Evolution. https://doi.org/10.1093/molbev/mst025
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