David Ochoa

David Ochoa

Postdoctoral Fellow - Beltrao research group

I am interested on disentangling the complexity of biological systems at different levels, generating data-driven hypotheses to explore the fundamental basis of disease, development, variability and evolution. My PhD research in Florencio Pazos’s group at CNB-CSIC focused on improving computational methods for predicting protein-protein interactions based on coevolution. These methods are founded on the idea that interacting or functionally related proteins tend to adapt to each other during the evolutionary process. As part of my post-doctoral research in the Beltrao group, I study the dynamics, specificity and functional relevance of post-translational modifications. Thanks to the rapidly growing volumes of proteomic data in recent years, the comparative analysis of genome-wide modification sites can provide deeper insights into the specificity and evolution of the regulatory mechanisms of protein activity.

ORCID iD: 0000-0003-1857-278X

Tel:+ 44 (0) 1223 492 547 / Fax:+ 44 (0) 1223 494 468

Publications

2016

Epigenomic Co-localization and Co-evolution Reveal a Key Role for 5hmC as a Communication Hub in the Chromatin Network of ESCs.
Juan D, Perner J, Carrillo de Santa Pau E, Marsili S, Ochoa D, Chung HR, Vingron M, Rico D, Valencia A.
Cell reports Volume 14 (2016) p.1246-1257

2015

Kinase-two-hybrid: towards the conditional interactome.
Ochoa D, Beltrao P.
Molecular systems biology Volume 11 (2015) p.798

Detection of significant protein coevolution.
Ochoa D, Juan D, Valencia A, Pazos F.
Bioinformatics (Oxford, England) Volume 31 (2015) p.2166-2173

2014

Practical aspects of protein co-evolution.
Ochoa D, Pazos F.
Frontiers in cell and developmental biology Volume 2 (2014) p.14

2013

Incorporating information on predicted solvent accessibility to the co-evolution-based study of protein interactions.
Ochoa D, García-Gutiérrez P, Juan D, Valencia A, Pazos F.
Molecular bioSystems Volume 9 (2013) p.70-76

2011

Selection of organisms for the co-evolution-based study of protein interactions.
Herman D, Ochoa D, Juan D, Lopez D, Valencia A, Pazos F.
BMC bioinformatics Volume 12 (2011) p.363

2010

Studying the co-evolution of protein families with the Mirrortree web server.
Ochoa D, Pazos F.
Bioinformatics (Oxford, England) Volume 26 (2010) p.1370-1371