Articles

 

Carvajal-Rodriguez A. (2017)

Myriads: p-value-based multiple testing correction.

Bioinformatics Advance access doi:10.1093/bioinformatics/btx746


Fernández-Meirama M, Carvajal-Rodriguez A., Rolán-Alvarez E. (2017)

Testing the role of mating preference in a case of incomplete ecological speciation with gene flow.

Biological Journal of the Linnean Society 122 (3): 549-557 doi:10.1093/biolinnean/blx107


A. Carvajal-Rodriguez (2017)

Non-random mating and information theory.

bioRxiv 095901 ; doi: https://doi.org/10.1101/095901


A. Carvajal-Rodriguez (2017)

HacDivSel: Two new methods (haplotype-based and outlier-based) for the detection of divergent selection in pairs of populations.

PLOS ONE 12(4): e0175944 doi: 10.1371/journal.pone.0175944


Fernández-Meirama M, Estévez D, Ng TPT, Williams GA, Carvajal-Rodriguez A., Rolán-Alvarez E. (2017)

A novel method for estimating the strength of positive mating preference by similarity in the wild.

Ecol Evol. 00:1-11 doi:10.1002/ece3.2835


A. Carvajal-Rodriguez (2016)

Incorporación de la programación informática en el currículum de Biología.

Magister. Vol. 27, pp. 76-82 doi: 10.1016/j.magis.2015.12.002


E. Rolán-Alvarez, A. Carvajal-Rodriguez, A. de Coo, B. Cortés, D. Estévez, M. Ferreira, R. González and A. D. Briscoe (2015)

The scale-of-choice effect and how estimates of assortative mating in the wild can be biased due to heterogeneous samples.

Evolution. Vol. 67, pp. 1845-1857 doi: 10.1111/evo.12691


M. J. Rivas, S. Dominguez-Garcia and A. Carvajal-Rodriguez (2015)

Detecting the Genomic Signature of Divergent Selection in Presence of Gene Flow.

Current Genomics. Vol. 16, pp. 203-212. doi: 10.2174/1389202916666150313230943


A. Carvajal-Rodríguez, E. Rolán-Alvarez (2014)

A comparative study of Gaussian mating preference functions: a key element of sympatric speciation models.

Biological Journal of the Linnean Society. Vol. 113, pp. 642-657. [Journal Link]


M. J. García-Pereira, A. Carvajal-Rodríguez, Simon Whelan, A. Caballero, H. Quesada (2014)

Impact of deep coalescence and recombination on the estimation of phylogenetic relationships among species using AFLP markers

Molecular Phylogenetics and Evolution. Vol. 76, pp. 102-109 [Journal Link]


A. Carvajal-Rodríguez (2012)

Teaching the fluctuation test in silico by using Mutate: A program to distinguish between the adaptive and spontaneous mutation hypotheses

Biochemistry and Molecular Biology Education. Vol. 40, No. 4, pp. 277–283. [Journal Link]


M. J. García-Pereira, H. Quesada, A. Caballero, A. Carvajal-Rodríguez (2012)

AFLPMax: a user-friendly application for computing the optimal number of amplified fragment length polymorphism markers needed in phylogenetic reconstruction

Molecular Ecology Resources. 12 (3): 566–569 doi: 10.1111/j.1755-0998.2011.03113.x


Carvajal-Rodríguez and de Uña-Alvarez (2011)

Assessing significance in high-throughput experiments by sequential goodness of fit and q-value estimation

PLoS ONE. 6 (9): e24700. [Journal Link]


Carvajal-Rodríguez and de Uña-Alvarez (2011)

A Simulation Study on the Impact of Strong Dependence in High-Dimensional Multiple-Testing I: The Case without Effects

PACBB. Advances in Intelligent and Soft Computing 93: 241-246 [SpringerLink]


AP. Diz, Carvajal-Rodríguez and David O. F. Skibinski (2011)

Multiple hypothesis testing in proteomics: A strategy for experimental work

Molecular & Cellular Proteomics 10: M110.004374 [Online early]


de Uña-Alvarez and Carvajal-Rodríguez (2010)

SGoFicance Trace: Assessing Significance in High Dimensional Testing Problems

PLoS ONE. 5 (12):e15930. doi:10.1371/journal.pone.0015930 [PDF]


Antonio Carvajal-Rodriguez (2010)

Simulation of Genes and Genomes Forward in Time.

Current Genomics 11 (1): 58-61.


Antonio Carvajal-Rodriguez Jacobo de Uña-Alvarez and Emilio Rolan-Alvarez (2009)

A new multitest correction (SGoF) that increases its statistical power when increasing the number of tests

BMC Bioinformatics 10:209 [PDF]


Antonio Carvajal-Rodriguez and Fernando Carvajal-Rodriguez (2009)

Population Extinction in Genetic Algorithms: Application in Evolutionary Studies

LNCS (IWANN 2009) 5518: 1028-1034


Antonio Carvajal-Rodriguez (2008)

Detecting recombination and diversifying selection in human alpha-papillomavirus

Infection, Genetics and Evolution 8: 689-692 [PDF] (see also Figure 1 corrigendum)


Antonio Carvajal-Rodriguez (2008)

GENOMEPOP: A program to simulate genomes in populations

BMC Bioinformatics 9: 223 [PDF]


Antonio Carvajal-Rodriguez (2008)

Simulation of genomes: A review.

Current Genomics 9 (3): 155-159.


Antonio Carvajal-Rodriguez (2008)

The role of recombination in the post-genomic era: Challenges and Perspectives.

in Genetic Recombination Research Progress pp. 205-227. Ed. Jacob H. Schulz. Nova Science Publishers, Inc. New York.


Antonio Carvajal-Rodríguez, David Posada, Marcos Pérez-Losada, Emily Keller, Elaine J. Abrams,  Raphael P. Viscidi and Keith A. Crandall (2008).
Disease progression and evolution of the HIV-1 C2V3C3 env gene region from 24 infected infants
.

Infection, Genetics and Evolution 8: 110-120. doi:10.1016/j.meegid.2007.10.009


Antonio Carvajal-Rodriguez (2007)

Simulating Genomes and Populations in the Mutation Space: An example with the evolution of HIV drug resistance.

arXiv:0801.0124v1

 

Manuel Angulo and Antonio Carvajal-Rodríguez (2007)

Evidence of recombination within human Alpha-Papillomavirus.

Virology Journal 4 :33 [PDF]

 

Antonio Carvajal-Rodríguez, Keith A. Crandall and David Posada (2007)

Recombination favors the evolution of drug resistance in HIV-1 during antiretroviral therapy.

Infection, Genetics and Evolution 7: 476-483. doi:10.1016/j.meegid.2007.02.001

Antonio Carvajal-Rodríguez (2007)

The importance of bio-computational tools for predicting HIV drug resistance.

Recent Patents on DNA & Gene Sequences.Volume 1, Number 1: 63-68 [PDF]

Gonzalo Bello, Concepción Casado, Soledad García, Carmen Rodríguez, Jorge del Romero, Antonio Carvajal-Rodríguez, David Posada and Cecilio López-Galíndez (2007)

Lack of temporal structure in the short term HIV-1 evolution within asymptomatic naïve patients.

Virology. 362: 294-303 . doi:10.1016/j.virol.2006.11.039

Conde-Padín P, Carvajal-Rodríguez A, Carballo M, Caballero A and Rolán-Álvarez E. (2007)

Genetic variation for shell traits in a direct-developing marine snail involved in a putative sympatric ecological speciation process

Evolutionary Ecology 21: 635-650. doi: 10.1007/s10682-006-9142-8

Antonio Carvajal-Rodríguez (2007)

FamSphere: A computer program for parental allocation from known genotypic pools.

Molecular Ecology Notes. 7: 213-216 [PDF] (Uncorrected Proof)

Carvajal-Rodríguez, A., Guerra-Varela, J.,  Fernández, B., Rolán, E. and E. Rolán-Alvarez (2006)

An example of application of the geometric morphometric tools to the morphological diagnosis of two sibling species in Nassarius (Mollusca, Prosobranchia). 

Iberus 24 (2): 81-88 [PDF]

Antonio Carvajal-Rodríguez and Emilio Rolán-Alvarez (2006).

JMATING: a software for the analysis of sexual selection and sexual isolation effects from mating frequency data.

BMC Evolutionary Biology 6:40.[Abstract][PDF]

 

Antonio Carvajal-Rodríguez, Keith A. Crandall and David Posada (2006.)

Recombination Estimation under Complex Evolutionary Models with the Coalescent Composite Likelihood Method.  

Molecular Biology and Evolution 23(4): 817-827. [Abstract] [PDF].

 

Antonio Carvajal Rodríguez, Keith A. Crandall y David Posada ( 2005 )

Caracterización y modelado computacional de la recombinación en secuencias de ADN en el virus del SIDA (VIH-1).

Biojournal.net 2 [PDF]

A. M. Rodríguez-Piñeiro, A. Carvajal-Rodríguez, E. Rolán-Álvarez , F. J. Rodríguez-Berrocal, M. Martínez-Fernández and M. Páez de la Cadena (2005)

Application of relative warp analysis to the evaluation of two-dimensional gels in proteomics: Studying isoelectric point and relative molecular mass variation

Journal of Proteome Research. Volume 4 (4): 1318 - 1323.

 

A. Carvajal-Rodríguez, P. Conde Padín and E Rolán  Álvarez (2005)

Decomposing shell form into size and shape by geometric-morphometric methods in two sympatric ecotypes of Littorina saxatilis.

Journal of Molluscan Studies 71: 313-318.  [PDF]

A. Carvajal-Rodríguez, E. Rolán-Alvarez and A. Caballero (2005)

Quantitative variation as a tool for detecting human-induced impacts on genetic diversity.

Biological Conservation. 124: 1-13 [PDF].

Carvajal-Rodríguez A, Rodríguez MG (2005)

MODICOS: Morphometric and Distance Computation Software for evolutionary studies.

Online Journal of Bioinformatics 6 : 34-40 [PDF] (Uncorrected Proof)

A. Pérez-Figueroa, F. Cruz, A. Carvajal-Rodríguez, E. Rolán-Alvarez and A. Caballero (2005)

The evolutionary forces maintaining a  wild polymorphism of Littorina saxatilis: model selection by  computer simulations.

Journal of Evolutionary Biology 18: 191-202.

A. Carvajal-Rodríguez (2004)

GASP: A new Genetic Algorithm (based on) Surviving Probability.

Online Journal of Bioinformatics 5:23-31. [PDF]

A. Carvajal (2001)

Complementary Genes in hybrids between D. koepferae and D. buzzatii: A Markov chain model allows to make inferences about their number and relationships.

Genes and Genetic Systems 76:345-353 [PDF]

A. Carvajal (1996)

Developmental disruption in hybrids between D. koepferae and D. buzzatii.

Int. Journ. of Dev. Biol. Suplement: 93s-94s [PDF].

A. Carvajal, M. Gandarela and H Naveira (1996)

A three-locus system of interspecific incompatibility underlies male inviability in hybrids between Drosophila buzzatii and D.koepferae.

Genetica 98:1-19 [PDF].