Marcela Dávila López

    Marcela Davila
    Email: marcela dot davila at gu dot se
    Visiting address: Medicinareg. 5B, floor 1000
    Mailing address: Bioinformatics Core Facility
    The Sahlgrenska Academy at the University of Gothenburg
    Box 413, 405 30 Göteborg

    I'm the manager of the Bioinformatics Core Facility at the University of Gothenburg, where we provide researchers with statistical and bioinformatics consultation, data analysis and training.

    I'm also a Postdoc in Claes Gustafsson and Maria Falkenberg's groups at the Department of Medical Biochemistsry and Cell Biology, University of Gothenburg. Here I'm mainly involved in the development of bioinformatics platforms for the analysis of NGS data, besides other bioinformatics support to the group.
    Exome: We are identifying disease-causing genes in individuals with defects in the activity of one or more respiratory chain complexes.
    ChIP-Seq: We are identifying the binding pattern of mitochondrial proteins and the mediator complex
    RNA-seq: We are identifying expresssion levels and small RNAs that are involved somehow with the centromeric region of S. pombe

    During my PhD (under the supervision of Tore Samuelsson) at the Department of Medical Biochemistsry and Cell Biology, University of Gothenburg. I dealed with protein and non-coding RNA homologue identification of several ribonucleoprotein complexes as well as their phylogenetic analysis to understand their evolution. I also examined non-random gene order in a broad range of organisms in order to look at gene pair conservation as well as translational regulation. These data can be accessed through the Eukariotic Gene Order Browser (eGOB)

    I'm also a co-founder of the Gothenburg Bioinformatics Network (GOTBIN) which intends to bring together all Gothenburg researchers for whom bioinformatics is a part of their research.

    Publications

    1. Sofou, K., et al. Whole exome sequencing reveals mutations in NARS2 and PARS2, encoding the mitochondrial asparaginyl-tRNA synthetase and prolyl-tRNA synthetase, in patients with Alpers Syndrome. Molecular Genetics & Genomic Medicine, 2014 (in press)
    2. Einarsdottir B.O., et al. Melanoma patient-derived xenografts accurately models the disease and develop fast enough to guide treatment decisions. OnctoTarget,September 08, 2014
    3. Banyai, G. et al. Mediator can regulate mitotic entry and direct periodic transcription in fission yeast.. Mol Cell Biol. 2014 Aug 25. pii: MCB.00819-14
    4. Nilsson, J. et al. Polyglucosan body myopathy caused by defective ubiquitin ligase RBCK1. Ann Neurol, 2013
    5. Terzioglu, M. et al. MTERF1 Binds mtDNA to Prevent Transcriptional Interference at the Light-Strand Promoter but Is Dispensable for rRNA Gene Transcription Regulation. Cell Metab 17, 618-626, 2013
    6. Bhadury, J. et al. Identification of tumorigenic and therapeutically actionable mutations in transplantable mouse tumor cells by exome sequencing Oncogenesis. 2013 Apr 15;2:e44. doi: 10.1038/oncsis.2013.8.
    7. Carlsten, JO. et al. Mediator Promotes CENP-A Incorporation at Fission Yeast Centromeres. Mol Cell Biol. 2012 Oct;32(19):4035-43. doi: 10.1128/MCB.00374-12
    8. Szilagyi, Z. et al. Cyclin-dependent kinase 8 regulates mitotic commitment in fission yeast. Mol Cell Biol. 2012. Jun;32(11):2099-109.
    9. Zhu, X. et al. Histone modifications influence mediator interactions with chromatin. Nucleic Acids Res. 2011 Oct;39(19):8342-54.
    10. Davila Lopez and T. Samuelsson. eGOB: eukaryotic Gene Order Browser. Bioinformatics, 2011. 27(8): p. 1150-1. eGOB: eukaryotic Gene Order Browser. Bioinformatics, 2011. 27(8): p. 1150-1. eGOB
    11. Davila Lopez, M., J.J. Martinez Guerra, and T. Samuelsson, Analysis of gene order conservation in eukaryotes identifies transcriptionally and functionally linked genes. PLoS One, 2010. 5(5): p. e10654. Supplemental data
    12. Davila Lopez, M., M.A. Rosenblad, and T. Samuelsson, Conserved and variable domains of RNase MRP RNA. RNA Biol, 2009. 6(3): p. 208-20.
    13. Davila Lopez, M., M.A. Rosenblad, and T. Samuelsson, Computational screen for spliceosomal RNA genes aids in defining the phylogenetic distribution of major and minor spliceosomal components. Nucleic Acids Res, 2008. 36(9): p. 3001-10. Supplemental data
    14. Davila Lopez, M. and T. Samuelsson, Early evolution of histone mRNA 3' end processing. RNA, 2008. 14(1): p. 1-10. Supplemental data
    15. Rosenblad, M. A., M. D. Lopez, P. Piccinelli, and T. Samuelsson. Inventory and analysis of the protein subunits of the ribonucleases P and MRP provides further evidence of homology between the yeast and human enzymes. Nucleic Acids Res, 2006. 34(18): p. 5145-56. Web supplement

    Recent participations

    Teaching and Proyects

    If interested here is my CV

APR 2013