Comparative Genomics

Comparative Genomics

Bioinformatics and Genomics

Comparative Genomics

Group leader
j

Comparative Genomics

Group leader
j


1997-2001
Junior researcher at the Molecular Biology and Biochemistry department at the Universitat de València (www.uv.es)
2001-2005 PhD in Bioinformatics, at CMBI (www.cmbi.ru.nl) and NCMLS (www.ncmls.ru.nl) centres at Nijmegen University (The Netherlands) (www.ru.nl) 
2005-2007 EMBO (www.embo.org) Postdoctoral fellow at the Bioinformatics Department at CIPF (Valencia). (http://bioinfo.cipf.es) 
2007-2008 FIS contracted researcher at the Bioinformatics Department at CIPF (Valencia). (http://bioinfo.cipf.es)  
Since Sept 2008 Junior Group Leader in the Bioinformatics and Genomics Programme, at the CRG (Barcelona) (www.crg.es)
Since 2013 ICREA Research Professor

Summary

Our research interests are focused around the use of comparative genomics and phylogenomics to study the origin, evolution and function of complex biological systems. This includes understanding how specific biochemical pathways, protein complexes or cellular organelles emerged and evolved as well as using this evolutionary information to gain insight into their function.

Through collaborations with experimental groups we apply comparative genomics to discover new mechanisms and genes involved in interesting processes, especially those of clinical relevance (see lines of research). On the technical side, our work often involves the development of new bioinformatics tools and algorithms that we make available to the community.

You can have more details here.
http://gabaldonlab.cgenomics.org
http://gabaldonlab.crg.es

Other Activities

Deathbase is a database of proteins involved in cell death.

Category:
Protein Analysis

Deathbase is a database of proteins involved in cell death. It compiles relevant data on the function, structure and evolution of proteins involved in apoptosis and other forms of cell death in several organisms. Information contained in this database is subjected to manual curation. You can contribute to maintain the DeathBase by editing the wikipage for any protein.

Website:

ETE (Environment for Tree Exploration) is a python programming toolkit that assists in the automated manipulation, analysis and visualization of hierarchical trees.

ETE (Environment for Tree Exploration) is a python programming toolkit that assists in the automated manipulation, analysis and visualization of hierarchical trees. Besides a broad set of tree handling options, ETE’s current version provides specific methods to analyze phylogenetic and clustering trees. It also supports large tree data structures, node annotation, independent editing and analysis of tree partitions, and the association of trees with external data such as multiple sequence alignments or numerical matrices. ETE first version was developed in collaboration with Dr. Joaquín Dopazo lab at Centro de Investigación Príncipe Felipe (CIPF).

Website:

MetaPhOrs is a public repository of phylogeny-based orthology and paralogy predictions for most species with fully-sequenced genomes.

Category:
Gene Analysis

MetaPhOrs is a public repository of phylogeny-based orthology and paralogy predictions for most species with fully-sequenced genomes.

Website:

PhylomeDB is a public database for complete collections of gene phylogenies (phylomes).

Category:
Gene Analysis

PhylomeDB is a public database for complete collections of gene phylogenies (phylomes). It allows users to interactively explore the evolutionary history of genes through the visualization of phylogenetic trees and multiple sequence alignments. Moreover, phylomeDB provides genome-wide orthology and paralogy predictions based on the analysis of the phylogenetic trees.

Website:

trimAl is a tool for the automated removal of spurious sequences or poorly aligned regions from a multiple sequence alignment It also includes readAl, a format converter between most alignment formats.

Category:
Sequence Analysis

trimAl is a tool for the automated removal of spurious sequences or poorly aligned regions from a multiple sequence alignment It also includes readAl, a format converter between most alignment formats.

Website: