Nicolas Rodrigue
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Explore the profile of Nicolas Rodrigue including associated specialties, affiliations and a list of published articles.
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43
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1246
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Recent Articles
1.
Bujaki T, Van Looyen K, Rodrigue N
Bioinform Adv
. 2023 Jul;
3(1):vbad091.
PMID: 37502274
Traditional approaches to probabilistic phylogenetic inference have relied on information-theoretic criteria to select among a relatively small set of substitution models. These model selection criteria have recently been called into...
2.
Latrille T, Rodrigue N, Lartillot N
Proc Natl Acad Sci U S A
. 2023 Mar;
120(11):e2214977120.
PMID: 36897968
Adaptation in protein-coding sequences can be detected from multiple sequence alignments across species or alternatively by leveraging polymorphism data within a population. Across species, quantification of the adaptive rate relies...
3.
Bujaki T, Rodrigue N
J Mol Evol
. 2022 Oct;
90(6):468-475.
PMID: 36207534
Models of amino acid replacement are central to modern phylogenetic inference, particularly so when dealing with deep evolutionary relationships. Traditionally, a single, empirically derived matrix was utilized, so as to...
4.
Laurin-Lemay S, Dickson K, Rodrigue N
J Mol Evol
. 2022 Jun;
90(3-4):239-243.
PMID: 35652926
We draw attention to an under-appreciated simulation method for generating artificial data in a phylogenetic context. The approach, which we refer to as jump-chain simulation, can invoke rich models of...
5.
Rodrigue N, Latrille T, Lartillot N
Mol Biol Evol
. 2021 May;
38(7):3032.
PMID: 34010420
No abstract available.
6.
Rodrigue N, Latrille T, Lartillot N
Mol Biol Evol
. 2020 Oct;
38(3):1199-1208.
PMID: 33045094
In recent years, codon substitution models based on the mutation-selection principle have been extended for the purpose of detecting signatures of adaptive evolution in protein-coding genes. However, the approaches used...
7.
Shafiei-Koij F, Ravichandran S, Barthet V, Rodrigue N, Mirlohi A, Majidi M, et al.
Physiol Mol Biol Plants
. 2020 Mar;
26(3):419-432.
PMID: 32205920
The diversity of 11 fatty acid desaturase () genes has not been investigated between cultivated and wild species in the genus. In this study, 17 accessions and 28 accessions from...
8.
Aris-Brosou S, Rodrigue N
Methods Mol Biol
. 2019 Jul;
1910:71-117.
PMID: 31278662
In this chapter, we give a not-so-long and self-contained introduction to computational molecular evolution. In particular, we present the emergence of the use of likelihood-based methods, review the standard DNA...
9.
Anderson J, Bruhn J, Kasimer D, Wang H, Rodrigue N, Smith M
Proc Biol Sci
. 2019 Apr;
285(1893):20182233.
PMID: 30963893
Individuals of the basidiomycete fungus Armillaria are well known for their ability to spread from woody substrate to substrate on the forest floor through the growth of rhizomorphs. Here, we...
10.
Kazmi S, Rodrigue N
BMC Evol Biol
. 2019 Feb;
19(1):62.
PMID: 30808289
Background: In recent years, increasing attention has been placed on the development of phylogeny-based statistical methodologies for uncovering site-specific changes in amino acid fitness profiles over time. The few available...