Professional AssociationsProfessional Associations: International Society for Computational Biology
more informationMore information: Director of DREAM challenges | Lead of Whole cell parameter estimation | Lead of Network topology and parameter estimation | Lead of Promoter prediction | Lead of Olfaction prediction | Lead of Single cell transcriptomics
Pablo is a Team leader in the Translational Systems Biology and Nanobiotechnology group and Research Staff member in the IBM Computational Biology Center. He joined IBM research in 2010 and received his Undergraduate degree in Physics from the University of Mexico UNAM (2000) and a Masters degree from the University of Paris VII/XI his Ph.D. in Genetics from the Rockefeller University (2005). He was awarded a Helen Hay Whitney fellowship as a posdoctoral fellow in Columbia university.
I am overall interested in how events at the molecular level and gene circuits determine mesoscopic or higher order phenomena from circadian bevahiors in flies, influences on apoptosis and prediction of olfactory responses from molecular structures (see full text of recent paper in Science).
Check my TEDx talk on DREAM challenges, "Breaking the Piñata of Science".
Systems Biology of Single Cell Variability
We want to generate single cell datasets for the analysis and development of computational tools in order to predict metabolic, transcriptional and macromolecular states in cells. Determining the state of a metabolic network in a cell and the regulation of enzymes enabling it, will be inferred through the spatial localization of fluorescently tagged enzymes in single cells. We will further measure using fluorescent time-lapse microscopy the rates of single cell growth, DNA replication and analyze how gene-circuits regulate these states. In-house whole cell computational models and methods developed through the Dialogue on Reverse Engineering Assessments and Methods (DREAM) will be used to explore the relationships between metabolism, gene expression and parameter estimation. As shown in the B.subtilis movie below, we want to understand how cells having same genomes and same external conditions of growth make different decisions. We also study how binary decisions such as -live or die- by cells and what are the main parameters that influence Cell-to Cell Variability, CCV.We recently discovered that mitochondrial abundance is a main determinant of CCV in apoptosis using our DEPICTIVE algorithm.
My research application rests on a comprehensive survey and assessment of computational approaches used to analyze cell metabolic regulation. It should pave the way to the identification of metabolic biomarkers predicting the phenotype of cancer cells/tissues that could be used for personalized medicine and cancer prevention. Results should be useful not only for the particular field of metabolic regulation in cancer, but also as a case study for developing computational methods to understand how cellular metabolic defects are linked to other diseases.