Microsatellite analysis and other Tools

Genetics - J.-F. Lefebvre and D. Labuda
Fraction of Informative Recombinations: A Heuristic Approach to Analyze Recombination Rates
Genetics, April 1, 2008; 178(4): 2069 - 2079.


Proceedings B
A. J McCarthy, M.-A. Shaw, and S. J Goodman
Pathogen evolution and disease emergence in carnivores
Proc R Soc B, December 22, 2007; 274(1629): 3165 - 3174.


Genetics
S. De Mita, J. Ronfort, H. I. McKhann, C. Poncet, R. El Malki, and T. Bataillon
Investigation of the Demographic and Selective Forces Shaping the Nucleotide Diversity of Genes Involved in Nod Factor Signaling in Medicago truncatula
Genetics, December 1, 2007; 177(4): 2123 - 2133.
-
D. Garrigan, S. B. Kingan, M. M. Pilkington, J. A. Wilder, M. P. Cox, H. Soodyall, B. Strassmann, G. Destro-Bisol, P. de Knijff, A. Novelletto, et al.
Inferring Human Population Sizes, Divergence Times and Rates of Gene Flow From Mitochondrial, X and Y Chromosome Resequencing Data
Genetics, December 1, 2007; 177(4): 2195 - 2207.
-
J. Gay, S. Myers, and G. McVean
Estimating Meiotic Gene Conversion Rates From Population Genetic Data
Genetics, October 1, 2007; 177(2): 881 - 894.


D. T. Gerrard and A. Meyer
Positive Selection and Gene Conversion in SPP120, a Fertilization-Related Gene, during the East African Cichlid Fish Radiation
Mol. Biol. Evol., October 1, 2007; 24(10): 2286 - 2297.


S. R. Miller, R. W. Castenholz, and D. Pedersen
Phylogeography of the Thermophilic Cyanobacterium Mastigocladus laminosus
Appl. Envir. Microbiol., August 1, 2007; 73(15): 4751 - 4759.


A. Auton and G. McVean
Recombination rate estimation in the presence of hotspots
Genome Res., August 1, 2007; 17(8): 1219 - 1227.



A. RoyChoudhury and M. Stephens
Fast and Accurate Estimation of the Population-Scaled Mutation Rate, {theta}, From Microsatellite Genotype Data
Genetics, June 1, 2007; 176(2): 1363 - 1366.


X. Didelot and D. Falush
Inference of Bacterial Microevolution Using Multilocus Sequence Data
Genetics, March 1, 2007; 175(3): 1251 - 1266.


A. Ojeda, J. Rozas, J. M. Folch, and M. Perez-Enciso
Unexpected High Polymorphism at the FABP4 Gene Unveils a Complex History for Pig Populations
Genetics, December 1, 2006; 174(4): 2119 - 2127.


P. Fearnhead
SequenceLDhot: detecting recombination hotspots
Bioinformatics, December 15, 2006; 22(24): 3061 - 3066.


X. Liu, M. M. Gutacker, J. M. Musser, and Y.-X. Fu
Evidence for Recombination in Mycobacterium tuberculosis
J. Bacteriol., December 1, 2006; 188(23): 8169 - 8177.



D. S. Guttman, S. J. Gropp, R. L. Morgan, and P. W. Wang
Diversifying Selection Drives the Evolution of the Type III Secretion System Pilus of Pseudomonas syringae
Mol. Biol. Evol., December 1, 2006; 23(12): 2342 - 2354.


C. T. T. Edwards, E. C. Holmes, O. G. Pybus, D. J. Wilson, R. P. Viscidi, E. J. Abrams, R. E. Phillips, and A. J. Drummond
Evolution of the Human Immunodeficiency Virus Envelope Gene Is Dominated by Purifying Selection
Genetics, November 1, 2006; 174(3): 1441 - 1453.


S. L. Kosakovsky Pond, D. Posada, M. B. Gravenor, C. H. Woelk, and S. D. W. Frost
Automated Phylogenetic Detection of Recombination Using a Genetic Algorithm
Mol. Biol. Evol., October 1, 2006; 23(10): 1891 - 1901.


B. C. Verrelli, S. A. Tishkoff, A. C. Stone, and J. W. Touchman
Contrasting Histories of G6PD Molecular Evolution and Malarial Resistance in Humans and Chimpanzees
Mol. Biol. Evol., August 1, 2006; 23(8): 1592 - 1601.



P. L. Morrell, D. M. Toleno, K. E. Lundy, and M. T. Clegg
Estimating the Contribution of Mutation, Recombination and Gene Conversion in the Generation of Haplotypic Diversity
Genetics, July 1, 2006; 173(3): 1705 - 1723.


T. C. Bruen, H. Philippe, and D. Bryant
A Simple and Robust Statistical Test for Detecting the Presence of Recombination
Genetics, April 1, 2006; 172(4): 2665 - 2681.



A. Carvajal-Rodriguez, K. A. Crandall, and D. Posada
Recombination Estimation Under Complex Evolutionary Models with the Coalescent Composite-Likelihood Method
Mol. Biol. Evol., April 1, 2006; 23(4): 817 - 827.


C. Charpentier, T. Nora, O. Tenaillon, F. Clavel, and A. J. Hance
Extensive Recombination among Human Immunodeficiency Virus Type 1 Quasispecies Makes an Important Contribution to Viral Diversity in Individual Patients
J. Virol., March 1, 2006; 80(5): 2472 - 2482.


D. J. Wilson and G. McVean
Estimating Diversifying Selection and Functional Constraint in the Presence of Recombination
Genetics, March 1, 2006; 172(3): 1411 - 1425.


D. H. Bos and B. Waldman
Evolution by Recombination and Transspecies Polymorphism in the MHC Class I Gene of Xenopus laevis
Mol. Biol. Evol., January 1, 2006; 23(1): 137 - 143.


N. G. C. Smith and P. Fearnhead
A Comparison of Three Estimators of the Population-Scaled Recombination Rate: Accuracy and Robustness
Genetics, December 1, 2005; 171(4): 2051 - 2062.


K. Roselius, W. Stephan, and T. Stadler
The Relationship of Nucleotide Polymorphism, Recombination Rate and Selection in Wild Tomato Species
Genetics, October 1, 2005; 171(2): 753 - 763.


G. A.T McVean and N. J Cardin
Approximating the coalescent with recombination
Phil Trans R Soc B, July 29, 2005; 360(1459): 1387 - 1393.


L. Zhu and C. D. Bustamante
A Composite-Likelihood Approach for Detecting Directional Selection From DNA Sequence Data
Genetics, July 1, 2005; 170(3): 1411 - 1421.


D. Shriner, A. G. Rodrigo, D. C. Nickle, and J. I. Mullins
Pervasive Genomic Recombination of HIV-1 in Vivo
Genetics, August 1, 2004; 167(4): 1573 - 1583.