P. Barnett PhD

Research Associate
Main activities
Molecular biology / protein biochemistry
Focus of research

Phil Barnett joined the group in 2003 as a protein biochemist. He has a wide background of expertise in biochemistry from molecular genetics to the structural characterization of proteins. During his PhD period he focused on both the biochemical and molecular characterization of a HOCl producing enzyme secreted by a fungus–protein purification, enzyme kinetics, cloning and crystal structure of first vnadium containing chloroperoxidase.
Shortly thereafter he started work as a postdoc at the AMC working on the purification, crystallization and mutational/functional analysis of the yeast peroxisomal import proteins Pex5, Pex13 and Pex14. Protein modelling and sequence analysis became a personal and even resulted in a couple of extra publications during this period.
After this period he joined a small starting spin-off company, Chromagenics, of the UvA as senior scientist/post-doc. The group was interested in identifying and isolating chromatin boundary elements and putting them to use in mammalian protein expression systems. He left this position in 2003 to start work at the Department of Anatomy and Embryology.

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Current Research
Current research focusses on the application of genome wide techniques (eg. ChIP-seq, RNAseq, 4C, bioinformatics) aimed at unravelling the regulation of cardiac transcriptome. Application of these techniques to investigate and provide functional information and basis to GWAS (genome wide association study) data. Central hypothesis is driven by the idea that GWAS can be used as a (rough) positional indicator for regulatory sequences. Genetic variation between individuals leads to trait differences, which may be disadvantageous, particularly when accompanied by disease. Understanding these connections (molecularly) may lead to new insights and approaches to patient care.
This postion allows me to exploit my knowledge of both protein biochemistry and higher order gene regulation, whilst at the same time working in a clinically translational environment.

Key publications
  • Boogerd C. J. J., Wong L. Y. E., van den Boogaard M., Bakker M. L., Tessadori F., Bakkers J., 't Hoen P. A. C., Moorman A. F., Christoffels V. M., Barnett P. Sox4 mediates Tbx3 transcriptional regulation of the gap junction protein Cx43 Cellular and molecular life sciences 2011;68 (23):3949-3961 [PubMed]
  • Boogerd Kees-Jan, Wong L. Y. Elaine, Christoffels Vincent M., Klarenbeek Meinke, Ruijter Jan M., Moorman Antoon F. M., Barnett Phil Msx1 and Msx2 are functional interacting partners of T-box factors in the regulation of Connexin43 Cardiovascular research 2008;78 (3):485-493 [PubMed]
  • Barnett Phil, van den Boogaard Malou, Christoffels Vincent LOCALIZED AND TEMPORAL GENE REGULATION IN HEART DEVELOPMENT Current topics in developmental biology 2012;100:171-201 [PubMed]
  • van den Boogaard Malou, Wong L. Y. Elaine, Tessadori Federico, Bakker Martijn L., Dreizehnter Lisa K., Wakker Vincent, Bezzina Connie R., 't Hoen Peter A. C., Bakkers Jeroen, Barnett Phil, Christoffels Vincent M. Genetic variation in T-box binding element functionally affects SCN5A/SCN10A enhancer Journal of clinical investigation 2012;122 (7):2519-2530 [PubMed]
  • van den Boogaard Malou, Smemo Scott, Burnicka-Turek Ozanna, Arnolds David E., van de Werken Harmen J. G., Klous Petra, McKean David, Muehlschlegel Jochen D., Moosmann Julia, Toka Okan, Yang Xinan H., Koopmann Tamara T., Adriaens Michiel E., Bezzina Connie R., de Laat Wouter, Seidman Christine, Seidman J. G., Christoffels Vincent M., Nobrega Marcelo A., Barnett Phil, Moskowitz Ivan P. A common genetic variant within SCN10A modulates cardiac SCN5A expression Journal of clinical investigation 2014;124 (4):1844-1852 [PubMed]
All Publications
Curriculum Vitae

Research programmes

Prof. V.M. Christoffels PhD (Transcriptional mechanism controlling heart development, regeneration and rhythm)