Leo Martins has recently left our lab to start a new adventure at Molly Stevens Lab at Imperial College London. There he will work on statistical analysis of Raman spectra for different applications, and probably on other things.
It has been a real pleasure to work with Leo all these years. Best wishes to you and Reiko. Take care.. and have fun!
Congratulations to Nuria and Tamara for being awarded a competitive doctoral fellowship from the Galician Government! 2 out of 2… not bad..
Joao Alves has joined our lab to do a postdoc on NGS cancer evolution. Joao comes from IPATIMUP and has worked before on human population genomics. Welcome!
Andrés Pérez-Figueroa has joined our lab as a postdoctoral researcher to work on Conus phylotranscriptomics. Andrés is a Spanish population geneticist that comes from a neighboring lab in our department. Welcome to our lab Andrés!
Postdoctoral position in NGS cancer evolution
University of Vigo, Spain – October, 2014
DESCRIPTION: A postdoctoral position is available within the European Research Council project PHYLOCANCER to work on cancer evolution in David Posada’s lab at the University of Vigo, Spain (http://darwin.uvigo.es).
JOB CONDITIONS: Initial appointments will be made for one year, with a possible extension to up to four years. Gross annual salary including benefits will be around 25,000-30,000 Euros, commensurate with experience. Starting date is negotiable.
MINIMUM REQUIREMENTS: Candidates should have a PhD degree and ample, demonstrable experience with NGS data analysis, in particular variant calling. Candidates without a strong NGS background will not be evaluated.
DESIRABLE REQUIREMENTS: Background in evolutionary/cancer genomics, programming abilities and/or statistical skills.
APPLICATION: Please send a letter of interest, C.V., and the names and contact details of two referees to David Posada at email@example.com, indicating “postdoctoral position phylocancer” in the subject of the email. Questions and requests for more information should be directed at the same address. Review of applications will begin immediately, and continue until the positions are filled.
It is now the turn for printed versions! You can find our penultimate paper in the current version of Systematic Biology (November 2014) . Here we show how classical homology categories can fail to describe homology relationships when we consider the effect of incomplete lineage sorting (ILS). In order to comprehensively describe these situations we had to rely in a three-tree representation (gene, locus and species trees), which points out the importance of considering the different phylogenetic layers to fully understand how evolution works.
From a pragmatic point of view, we also demonstrate how these situations can easily mislead commonly used parsimony reconciliation approaches, pointing out the need of quickly adopting the newest methodologies.
Last but not least, we consequently proposed a revised terminology describing the different homology categories (and subcategories).
Diego Mallo, Leonardo De Oliveira Martins and David Posada (2014). Unsorted Homology within Locus and Species Trees. Systematic Biology, 63: 988-992, doi: 10.1093/sysbio/syu050
Our latest article has just been published in Systematic Biology. It describes a model for estimating the set of species trees conforming to several tree-to-tree distances at once. We show how we can use reconciliation distances, the recently developed mulRF distance, or a combination of them into a single multivariate distribution that is incorporated into a hierarchical Bayesian model. We then conduct extensive simulations and show how our method performs well even when we have paralogy and deep coalescences at once.
We implemented this model into the software guenomu, which is available under a GPL license at http://bitbucket.org/leomrtns/guenomu.
Leonardo De Oliveira Martins, Diego Mallo and David Posada (2014). A Bayesian Supertree Model for Genome-Wide Species Tree Reconstruction. Systematic Biology, in press, doi: 10.1093/sysbio/syu082
We have participated in a Science paper published today on the early spread of HIV-1 from Kinshasa (DRC) around 1920, and the emphasize the role of transportation, social changes and public health campaigns.