The DOI matches its Crossref record; 5 of the 5 references it cites were found in a registry or an index.
Gene-Wide Identification of Episodic Selection
Open accessAbstract
We present BUSTED, a new approach to identifying gene-wide evidence of episodic positive selection, where the non-synonymous substitution rate is transiently greater than the synonymous rate. BUSTED can be used either on an entire phylogeny (without requiring an a priori hypothesis regarding which branches are under positive selection) or on a pre-specified subset of foreground lineages (if a suitable a priori hypothesis is available). Selection is modeled as varying stochastically over branches and sites, and we propose a computationally inexpensive evidence metric for identifying sites subject to episodic positive selection on any foreground branches. We compare BUSTED with existing models on simulated and empirical data. An implementation is available on www.datamonkey.org/busted, with a widget allowing the interactive specification of foreground branches.
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Cites
A codon-based model of nucleotide substitution for protein-coding DNA sequences.
(1994) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a040153 · Cited by 1,960
Detecting Individual Sites Subject to Episodic Diversifying Selection
Murrell, B., Wertheim, J. O., Moola, S., Weighill, T., Scheffler, K., & Kosakovsky Pond, S. L. (2012) · PLoS Genetics · doi:10.1371/journal.pgen.1002764 · Cited by 1,811
Self-citationYang, Z., & Nielsen, R. (2002) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a004148 · Cited by 1,374
A random effects branch-site model for detecting episodic diversifying selection
Kosakovsky Pond, S. L., Murrell, B., Fourment, M., Frost, S. D. W., Delport, W., & Scheffler, K. (2011) · Molecular Biology and Evolution · doi:10.1093/molbev/msr125 · Cited by 400
Self-citationCorrecting the Bias of Empirical Frequency Parameter Estimators in Codon Models
Kosakovsky Pond, S., Delport, W., Muse, S. V., & Scheffler, K. (2010) · PLoS ONE · doi:10.1371/journal.pone.0011230 · Cited by 51
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Metadata
- Authors
- Murrell, B., Weaver, S., Smith, M. D., Wertheim, J. O., Murrell, S., Aylward, A., Eren, K., Pollner, T., Martin, D. P., Smith, D. M., Scheffler, K., & Kosakovsky Pond, S. L.
- Venue
- Molecular Biology and Evolution
- Publisher
- Oxford University Press (OUP)
- Published
- 2015-02-19
- Volume
- 32
- Issue
- 5
- Pages
- 1365-1371
- ISSN
- 0737-4038 (ISSN-L)
- 1537-1719
- OpenAlex
- W2044044562
- Cited by
- 656
- References
- 5
- FWCI
- 19.12
- Type
- journal article
- Language
- en
- Open access
- bronze
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- Murrell, B., Weaver, S., Smith, M. D., Wertheim, J. O., Murrell, S., Aylward, A., Eren, K., Pollner, T., Martin, D. P., Smith, D. M., Scheffler, K., & Kosakovsky Pond, S. L. (2015). Gene-Wide Identification of Episodic Selection. Molecular Biology and Evolution. https://doi.org/10.1093/molbev/msv035
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