IAMBEE : a web-service for the identification of adaptive pathways from parallel evolved clonal populations
- Author
- Camilo Andrés Pérez Romero (UGent) , Bram Weytjens (UGent) , Dries Decap (UGent) , Toon Swings, Jan Michiels, Dries De Maeyer (UGent) and Kathleen Marchal (UGent)
- Organization
- Abstract
- IAMBEE is a web server designed for the Identification of Adaptive Mutations in Bacterial Evolution Experiments (IAMBEE). Input data consist of genotype information obtained from independently evolved clonal populations or strains that show the same adapted behavior (phenotype). To distinguish adaptive from passenger mutations, IAMBEE searches for neighborhoods in an organism-specific interaction network that are recurrently mutated in the adapted populations. This search for recurrently mutated network neighborhoods, as proxies for pathways is driven by additional information on the functional impact of the observed genetic changes and their dynamics during adaptive evolution. In addition, the search explicitly accounts for the differences in mutation rate between the independently evolved populations. Using this approach, IAMBEE allows exploiting parallel evolution to identify adaptive pathways. The web-server is freely available at http://bioinformatics.intec.ugent.be/iambee/ with no login requirement.
- Keywords
- CANCER, EVOLUTION, HETEROGENEITY, EPISTASIS, DYNAMICS
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Citation
Please use this url to cite or link to this publication: http://hdl.handle.net/1854/LU-8624120
- MLA
- Pérez Romero, Camilo Andrés, et al. “IAMBEE : A Web-Service for the Identification of Adaptive Pathways from Parallel Evolved Clonal Populations.” NUCLEIC ACIDS RESEARCH, vol. 47, no. W1, Oxford Univ Press, 2019, pp. W151–57, doi:10.1093/nar/gkz451.
- APA
- Pérez Romero, C. A., Weytjens, B., Decap, D., Swings, T., Michiels, J., De Maeyer, D., & Marchal, K. (2019). IAMBEE : a web-service for the identification of adaptive pathways from parallel evolved clonal populations. NUCLEIC ACIDS RESEARCH, 47(W1), W151–W157. https://doi.org/10.1093/nar/gkz451
- Chicago author-date
- Pérez Romero, Camilo Andrés, Bram Weytjens, Dries Decap, Toon Swings, Jan Michiels, Dries De Maeyer, and Kathleen Marchal. 2019. “IAMBEE : A Web-Service for the Identification of Adaptive Pathways from Parallel Evolved Clonal Populations.” NUCLEIC ACIDS RESEARCH 47 (W1): W151–57. https://doi.org/10.1093/nar/gkz451.
- Chicago author-date (all authors)
- Pérez Romero, Camilo Andrés, Bram Weytjens, Dries Decap, Toon Swings, Jan Michiels, Dries De Maeyer, and Kathleen Marchal. 2019. “IAMBEE : A Web-Service for the Identification of Adaptive Pathways from Parallel Evolved Clonal Populations.” NUCLEIC ACIDS RESEARCH 47 (W1): W151–W157. doi:10.1093/nar/gkz451.
- Vancouver
- 1.Pérez Romero CA, Weytjens B, Decap D, Swings T, Michiels J, De Maeyer D, et al. IAMBEE : a web-service for the identification of adaptive pathways from parallel evolved clonal populations. NUCLEIC ACIDS RESEARCH. 2019;47(W1):W151–7.
- IEEE
- [1]C. A. Pérez Romero et al., “IAMBEE : a web-service for the identification of adaptive pathways from parallel evolved clonal populations,” NUCLEIC ACIDS RESEARCH, vol. 47, no. W1, pp. W151–W157, 2019.
@article{8624120,
abstract = {{IAMBEE is a web server designed for the Identification of Adaptive Mutations in Bacterial Evolution Experiments (IAMBEE). Input data consist of genotype information obtained from independently evolved clonal populations or strains that show the same adapted behavior (phenotype). To distinguish adaptive from passenger mutations, IAMBEE searches for neighborhoods in an organism-specific interaction network that are recurrently mutated in the adapted populations. This search for recurrently mutated network neighborhoods, as proxies for pathways is driven by additional information on the functional impact of the observed genetic changes and their dynamics during adaptive evolution. In addition, the search explicitly accounts for the differences in mutation rate between the independently evolved populations. Using this approach, IAMBEE allows exploiting parallel evolution to identify adaptive pathways. The web-server is freely available at http://bioinformatics.intec.ugent.be/iambee/ with no login requirement.}},
author = {{Pérez Romero, Camilo Andrés and Weytjens, Bram and Decap, Dries and Swings, Toon and Michiels, Jan and De Maeyer, Dries and Marchal, Kathleen}},
issn = {{0305-1048}},
journal = {{NUCLEIC ACIDS RESEARCH}},
keywords = {{CANCER,EVOLUTION,HETEROGENEITY,EPISTASIS,DYNAMICS}},
language = {{eng}},
number = {{W1}},
pages = {{W151--W157}},
publisher = {{Oxford Univ Press}},
title = {{IAMBEE : a web-service for the identification of adaptive pathways from parallel evolved clonal populations}},
url = {{http://doi.org/10.1093/nar/gkz451}},
volume = {{47}},
year = {{2019}},
}
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