Universitat Pompeu Fabra View Institution's Website 4 articles published in JoVE Biology High-Throughput Behavioral Aging and Lifespan Assays Using the Lifespan Machine Andrea Del Carmen-Fabregat1,2, Lucia Sedlackova1, Natasha Oswal1,2, Nicholas Stroustrup1,2 1Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology (BIST), 2Universitat Pompeu Fabra (UPF) The imaging platform "The Lifespan Machine" automates the lifelong observation of large populations. We show the steps required to perform lifespan, stress resistance, pathogenesis, and behavioral aging assays. The quality and scope of the data allow researchers to study interventions in aging despite the presence of biological and environmental variation. Developmental Biology Direct Force Measurements of Subcellular Mechanics in Confinement using Optical Tweezers Frederic Català-Castro1, Valeria Venturini2,3, Santiago Ortiz-Vásquez1, Verena Ruprecht2,4, Michael Krieg1 1Neurophotonics and Mechanical Systems Biology, Institut de Ciències Fotòniques, ICFO, 2Center for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology, 3Institut de Ciències Fotòniques, ICFO, 4Universitat Pompeu Fabra (UPF) Here, we present a protocol to investigate the intracellular mechanical properties of isolated embryonic zebrafish cells in three-dimensional confinement with direct force measurement by an optical trap. Genetics Identification of Enhancer-Promoter Contacts in Embryoid Bodies by Quantitative Chromosome Conformation Capture (4C) Tian V. Tian1,2,3, Enrique Vidal1,2, Thomas Graf1,2, Grégoire Stik1,2 1Center for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology, 2Universitat Pompeu Fabra, 3 We report the application of quantitative chromosome conformation capture followed by high-throughput sequencing in embryoid bodies generated from embryonic stem cells. This technique allows to identify and quantitate the contacts between putative enhancers and promoter regions of a given gene during embryonic stem cell differentiation. Biology Genome-wide Analysis using ChIP to Identify Isoform-specific Gene Targets Michael L. Beshiri1, Abul Islam2, Dannielle C. DeWaal1, William F. Richter1, Jennifer Love3, Nuria Lopez-Bigas2, Elizaveta V. Benevolenskaya1 1Department of Biochemistry and Molecular Genetics, University of Illinois Chicago - UIC, 2Research Unit on Biomedical Informatics, Universitat Pompeu Fabra, 3Genome Technology Core, Whitehead Institute for Biomedical Research Here we are presenting a chromatin immunoprecipitation (ChIP) procedure for genome-wide location analysis of protein isoforms that differ in a histone-binding domain. We are applying it to ChIP-Seq analysis to identify the targets of the KDM5A/JARID1A/RBP2 histone demethylase.
