April 2021 M T W T F S S « Jul 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30
tagcloudcabo verde cancer cancer evolution cape verde CONTRA conus deep coalescence duplication and loss forensic genetics gene duplication and loss gene family gene tree genome grants HIV-1 homology categories horizontal gene transfer jobs lab locus tree marine genomics models modeltest NGS phd phylocancer phylogeography postdoc postdocs protein evolution reconciliation simulation single-cell species tree species trees supertree virus evolution
Category Archives: Research
NGSphy, our tool for simulating NGS reads along gene trees or genome-wide along a species tree with multiple gene families, is now published in Bioinformatics. https://academic.oup.com/bioinformatics/advance-article-abstract/doi/10.1093/bioinformatics/bty146/4925260?redirectedFrom=fulltext Source code, full documentation, and tutorials including a “Getting started” guide are available at http://github.com/merlyescalona/ngsphy
Substitution Rates Predicted by Stability-Constrained Models of Protein Evolution Are Not Consistent with Empirical Data
Both stability-constrained and structure-constrained substitution models are required to realistically predict the effect of mutations during protein evolution. A great study with Ugo Bastolla’s lab just published in Molecular Biology and Evolution, https://academic.oup.com/mbe/article-abstract/35/3/743/4775142?redirectedFrom=fulltext
Congratulations Iria for publishing a very nice paper describing the assembly of the genome of a beautiful angelfish! https://www.nature.com/articles/s41598-018-19430-x
Two open Marie Curie PhD positions (CONTRA ITN) in computational cancer evolution at our lab. Please apply! ESR 11: Estimation of tumour growth rates from NGS data Understanding the process of tumour growth is fundamental for many aspects of cancer … Continue reading
Jose Tubio is moving to the University of Santiago de Compostela with his team. Best wishes Jose!
Congratulations to our EXCELLENT Laura!
The Neolithic expansion at both shores of the Mediterranean Sea was not different after all. A nice study applying approximation Bayesian computation for model selection and parameters estimation. Just published in Molecular Biology and Evolution, https://academic.oup.com/mbe/article/34/12/3232/4237582
ProtASR: An Evolutionary Framework for Ancestral Protein Reconstruction with Selection on Folding Stability
A new evolutionary framework for ancestral protein reconstruction accounting for structural constraints, just published in Systematic Biology https://academic.oup.com/sysbio/article-abstract/66/6/1054/2840014/ProtASR-An-Evolutionary-Framework-for-Ancestral?redirectedFrom=fulltext
A comprehensive review on the diverse disciplines of nonhuman forensic genetics, just published in PLoS Genetics. Indeed, it is a fantastic collaboration with the lab of Antonio Amorim and Angel Carracedo: http://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1006960