Tomasz Zemojtel

Summary

Affiliation: Max Planck Institute for Molecular Genetics
Country: Germany

Publications

  1. pmc L1Base: from functional annotation to prediction of active LINE-1 elements
    Tobias Penzkofer
    Department of Computational Molecular Biology, Max Planck Institute for Molecular Genetics, Ihnestrasse 73, D 14195 Berlin, Germany
    Nucleic Acids Res 33:D498-500. 2005
  2. pmc CpG deamination creates transcription factor-binding sites with high efficiency
    Tomasz Zemojtel
    Department of Computational Molecular Biology, Max Planck Institute for Molecular Genetics, Berlin, Germany
    Genome Biol Evol 3:1304-11. 2011
  3. pmc MIA is a potential biomarker for tumour load in neurofibromatosis type 1
    Mateusz Kolanczyk
    Institute of Medical Genetics, Charite, Universitatsmedizin Berlin, Humboldt University, Augustenburger Platz 1, D 13353 Berlin, Germany
    BMC Med 9:82. 2011
  4. pmc Exonization of active mouse L1s: a driver of transcriptome evolution?
    Tomasz Zemojtel
    Department of Computational Molecular Biology, Max Planck Institute for Molecular Genetics, Ihnestrasse 73, D 14195 Berlin, Germany
    BMC Genomics 8:392. 2007
  5. ncbi request reprint A novel conserved family of nitric oxide synthase?
    Tomasz Zemojtel
    Department of Bioinformatics, University of Wuerzburg, Am Hubland, D 97074 Wuerzburg, Germany
    Trends Biochem Sci 29:224-6. 2004
  6. ncbi request reprint Mammalian mitochondrial nitric oxide synthase: characterization of a novel candidate
    Tomasz Zemojtel
    Department of Computational Molecular Biology, Max Planck Institute for Molecular Genetics, Ihnestrasse 73, D 14195 Berlin, Germany
    FEBS Lett 580:455-62. 2006
  7. pmc Retrotransposition and mutation events yield Rap1 GTPases with differential signalling capacity
    Tomasz Zemojtel
    Department of Computational Molecular Biology, Max Planck Institute for Molecular Genetics, Berlin, Germany
    BMC Evol Biol 10:55. 2010
  8. doi request reprint Methylation and deamination of CpGs generate p53-binding sites on a genomic scale
    Tomasz Zemojtel
    Department of Computational Molecular Biology, Max Planck Institute for Molecular Genetics, Ihnestrasse 73, D 14195 Berlin, Germany
    Trends Genet 25:63-6. 2009
  9. pmc Rap1A-deficient T and B cells show impaired integrin-mediated cell adhesion
    Marlena Duchniewicz
    Department of Computational Molecular Biology, Max Planck Institute for Molecular Genetics, Ihnestrasse 73, D 14195 Berlin, Germany
    Mol Cell Biol 26:643-53. 2006
  10. pmc NOA1 is an essential GTPase required for mitochondrial protein synthesis
    Mateusz Kolanczyk
    Development and Disease Group, Max Planck Institute for Molecular Genetics, 14195 Berlin, Germany
    Mol Biol Cell 22:1-11. 2011

Detail Information

Publications17

  1. pmc L1Base: from functional annotation to prediction of active LINE-1 elements
    Tobias Penzkofer
    Department of Computational Molecular Biology, Max Planck Institute for Molecular Genetics, Ihnestrasse 73, D 14195 Berlin, Germany
    Nucleic Acids Res 33:D498-500. 2005
    ..The L1Base is available online at http://l1base.molgen.mpg.de. In addition, the data stored in the database can be accessed from the Ensembl web browser via a DAS service (http://l1das.molgen.mpg.de:8080/das)...
  2. pmc CpG deamination creates transcription factor-binding sites with high efficiency
    Tomasz Zemojtel
    Department of Computational Molecular Biology, Max Planck Institute for Molecular Genetics, Berlin, Germany
    Genome Biol Evol 3:1304-11. 2011
    ....
  3. pmc MIA is a potential biomarker for tumour load in neurofibromatosis type 1
    Mateusz Kolanczyk
    Institute of Medical Genetics, Charite, Universitatsmedizin Berlin, Humboldt University, Augustenburger Platz 1, D 13353 Berlin, Germany
    BMC Med 9:82. 2011
    ..Neurofibromatosis type 1 (NF1) is a frequent genetic disease characterized by multiple benign tumours with increased risk for malignancy. There is currently no biomarker for tumour load in NF1 patients...
  4. pmc Exonization of active mouse L1s: a driver of transcriptome evolution?
    Tomasz Zemojtel
    Department of Computational Molecular Biology, Max Planck Institute for Molecular Genetics, Ihnestrasse 73, D 14195 Berlin, Germany
    BMC Genomics 8:392. 2007
    ..Long interspersed nuclear elements (LINE-1s, L1s) have been recently implicated in the regulation of mammalian transcriptomes...
  5. ncbi request reprint A novel conserved family of nitric oxide synthase?
    Tomasz Zemojtel
    Department of Bioinformatics, University of Wuerzburg, Am Hubland, D 97074 Wuerzburg, Germany
    Trends Biochem Sci 29:224-6. 2004
  6. ncbi request reprint Mammalian mitochondrial nitric oxide synthase: characterization of a novel candidate
    Tomasz Zemojtel
    Department of Computational Molecular Biology, Max Planck Institute for Molecular Genetics, Ihnestrasse 73, D 14195 Berlin, Germany
    FEBS Lett 580:455-62. 2006
    ..The expression data suggest that a candidate for mammalian mitochondrial nitric oxide synthase contributes to multiple physiological processes during embryogenesis, which may include roles in liver haematopoesis and bone development...
  7. pmc Retrotransposition and mutation events yield Rap1 GTPases with differential signalling capacity
    Tomasz Zemojtel
    Department of Computational Molecular Biology, Max Planck Institute for Molecular Genetics, Berlin, Germany
    BMC Evol Biol 10:55. 2010
    ..Through acquiring tempero-spatial expression patterns distinct from their parental genes and/or functional mutations in their coding sequences, such retrogenes may in principle reshape signalling networks...
  8. doi request reprint Methylation and deamination of CpGs generate p53-binding sites on a genomic scale
    Tomasz Zemojtel
    Department of Computational Molecular Biology, Max Planck Institute for Molecular Genetics, Ihnestrasse 73, D 14195 Berlin, Germany
    Trends Genet 25:63-6. 2009
    ..In light of this, we propose that the deamination of methylated CpGs constitutes a universal mechanism for de novo generation of various transcription-factor-binding sites in Alus...
  9. pmc Rap1A-deficient T and B cells show impaired integrin-mediated cell adhesion
    Marlena Duchniewicz
    Department of Computational Molecular Biology, Max Planck Institute for Molecular Genetics, Ihnestrasse 73, D 14195 Berlin, Germany
    Mol Cell Biol 26:643-53. 2006
    ..Although it is possible that the relatively mild phenotype is a consequence of functional complementation by the Rap1B gene, our genetic studies confirm a role for Rap1A in the regulation of integrins...
  10. pmc NOA1 is an essential GTPase required for mitochondrial protein synthesis
    Mateusz Kolanczyk
    Development and Disease Group, Max Planck Institute for Molecular Genetics, 14195 Berlin, Germany
    Mol Biol Cell 22:1-11. 2011
    ..Thus, NOA1 is required for such basal mitochondrial functions as adenosine triphosphate (ATP) synthesis and apoptosis...
  11. ncbi request reprint In search of the prototype of nitric oxide synthase
    Tomasz Zemojtel
    Department of Bioinformatics, University of Wurzburg, Am Hubland, D 97074 Wurzburg, Germany
    FEBS Lett 554:1-5. 2003
    ....
  12. doi request reprint Breakpointer: using local mapping artifacts to support sequence breakpoint discovery from single-end reads
    Ruping Sun
    Department of Computational Molecular Biology, Max Planck Institute for Molecular Genetics, Ihnestr 63 73, 14195 Berlin, Germany
    Bioinformatics 28:1024-5. 2012
    ..Thus, Breakpointer complements existing methods to locate SVs from single-end reads...
  13. ncbi request reprint NO-bound myoglobin: structural diversity and dynamics of the NO ligand
    Tomasz Zemojtel
    Department of Bioinformatics, University of Wuerzburg, Am Hubland, D 97074 Wuerzburg, Germany
    J Am Chem Soc 126:1930-1. 2004
    ..We discovered that the diatomic ligand is severely tilted in the protein and present evidence that the Fe-NO moiety can sample a wide range of off-axis tilting and bending conformations...
  14. ncbi request reprint Plant nitric oxide synthase: a never-ending story?
    Tomasz Zemojtel
    Trends Plant Sci 11:524-5; author reply 526-8. 2006
  15. ncbi request reprint ECEPE proteins: a novel family of eukaryotic cysteine proteinases
    Krzysztof Ginalski
    Interdisciplinary Centre for Mathematical and Computational Modelling, Warsaw University, Pawinskiego 5A, 02 106 Warsaw, Poland
    Trends Biochem Sci 29:524-6. 2004
    ..The presence of the invariant Cys-His-Asp/Asn catalytic triad and the oxyanion-hole glutamine residue characteristic of papain-like cysteine proteases indicate that ECEPE proteins might function as proteases...
  16. ncbi request reprint Role of the interdomain linker probed by kinetics of CO ligation to an endothelial nitric oxide synthase mutant lacking the calmodulin binding peptide (residues 503-517 in bovine)
    Tomasz Zemojtel
    Departments of Pharmacology I and Medicine I, University of Freiburg, Germany
    Biochemistry 42:6500-6. 2003
    ..We propose that the calmodulin binding residues form a helix that is critical for the proper alignment of the adjacent reductase and oxygenase domains within the active eNOS dimer in achieving proper electron transfer between them...