Frank Buchholz

Summary

Affiliation: Technical University
Country: Germany

Publications

  1. pmc Vika/vox, a novel efficient and specific Cre/loxP-like site-specific recombination system
    Madina Karimova
    Medical Systems Biology, Medical Faculty and University Hospital Carl Gustav Carus, University of Technology, Fetscherstrasse 74, 01307 Dresden, Germany
    Nucleic Acids Res 41:e37. 2013
  2. pmc Engineering of a target site-specific recombinase by a combined evolution- and structure-guided approach
    Joséphine Abi-Ghanem
    Structural Bioinformatics, BIOTEC TU Dresden, Tatzberg 47 51, 01037 Dresden, Germany
    Nucleic Acids Res 41:2394-403. 2013
  3. pmc A genome-wide RNAi screen identifies proteins modulating aberrant FLT3-ITD signaling
    A Caldarelli
    Department of Medical Systems Biology, University Hospital and Medical Faculty Carl Gustav Carus, University of Technology Dresden, Dresden, Germany
    Leukemia 27:2301-10. 2013
  4. doi request reprint Engineered DNA modifying enzymes: components of a future strategy to cure HIV/AIDS
    Frank Buchholz
    University Carl Gustav Carus and Medical Faculty, TU Dresden, Germany
    Antiviral Res 97:211-7. 2013
  5. doi request reprint A systematic RNAi synthetic interaction screen reveals a link between p53 and snoRNP assembly
    Dragomir B Krastev
    University of Technology Dresden, University Hospital and Medical Faculty Carl Gustav Carus, Department of Medical Systems Biology, Fetscherstraße 74, D 01307 Dresden, Germany
    Nat Cell Biol 13:809-18. 2011
  6. pmc RAD21 cooperates with pluripotency transcription factors in the maintenance of embryonic stem cell identity
    Anja Nitzsche
    Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany
    PLoS ONE 6:e19470. 2011
  7. doi request reprint Combined RNAi and localization for functionally dissecting long noncoding RNAs
    Debojyoti Chakraborty
    University of Technology Dresden, University Hospital and Medical Faculty Carl Gustav Carus, Department of Medical Systems Biology, Dresden, Germany
    Nat Methods 9:360-2. 2012
  8. pmc SeLOX--a locus of recombination site search tool for the detection and directed evolution of site-specific recombination systems
    Vineeth Surendranath
    Max Planck Institute for the Molecular Cell Biology and Genetics, Dresden, Germany
    Nucleic Acids Res 38:W293-8. 2010
  9. doi request reprint Polycomb group ring finger 1 cooperates with Runx1 in regulating differentiation and self-renewal of hematopoietic cells
    Katharina Ross
    University Hospital Carl Gustav Carus and Medical Faculty, University of Technology Dresden, Dresden, Germany
    Blood 119:4152-61. 2012
  10. pmc A genome-scale DNA repair RNAi screen identifies SPG48 as a novel gene associated with hereditary spastic paraplegia
    Mikołaj Słabicki
    Max Planck Institute for Molecular Cell Biology and Genetics, Dresden, Germany
    PLoS Biol 8:e1000408. 2010

Collaborators

Detail Information

Publications24

  1. pmc Vika/vox, a novel efficient and specific Cre/loxP-like site-specific recombination system
    Madina Karimova
    Medical Systems Biology, Medical Faculty and University Hospital Carl Gustav Carus, University of Technology, Fetscherstrasse 74, 01307 Dresden, Germany
    Nucleic Acids Res 41:e37. 2013
    ..Our results show that Vika/vox is a novel powerful and safe instrument in the 'genetic toolbox' that can be used alone or in combination with other SSRs in heterologous hosts...
  2. pmc Engineering of a target site-specific recombinase by a combined evolution- and structure-guided approach
    Joséphine Abi-Ghanem
    Structural Bioinformatics, BIOTEC TU Dresden, Tatzberg 47 51, 01037 Dresden, Germany
    Nucleic Acids Res 41:2394-403. 2013
    ..Combining evolutionary and rational approaches should help in accelerating the generation of enzymes with desired properties for use in biotechnology and biomedicine...
  3. pmc A genome-wide RNAi screen identifies proteins modulating aberrant FLT3-ITD signaling
    A Caldarelli
    Department of Medical Systems Biology, University Hospital and Medical Faculty Carl Gustav Carus, University of Technology Dresden, Dresden, Germany
    Leukemia 27:2301-10. 2013
    ..Together our data suggest intracellular protein transport as a potential target for FLT3-ITD driven leukemias, with KDELR1 emerging as a positive modulator of oncogenic FLT3-ITD activity. ..
  4. doi request reprint Engineered DNA modifying enzymes: components of a future strategy to cure HIV/AIDS
    Frank Buchholz
    University Carl Gustav Carus and Medical Faculty, TU Dresden, Germany
    Antiviral Res 97:211-7. 2013
    ..These approaches offer new ways to tackle the infection, and alone or in conjunction with already established treatments, promise to transform HIV into a curable disease...
  5. doi request reprint A systematic RNAi synthetic interaction screen reveals a link between p53 and snoRNP assembly
    Dragomir B Krastev
    University of Technology Dresden, University Hospital and Medical Faculty Carl Gustav Carus, Department of Medical Systems Biology, Fetscherstraße 74, D 01307 Dresden, Germany
    Nat Cell Biol 13:809-18. 2011
    ..This unanticipated function of TP53 in snoRNP assembly highlights the potential of RNAi-mediated synthetic interaction screens to dissect molecular pathways of tumour suppressor genes...
  6. pmc RAD21 cooperates with pluripotency transcription factors in the maintenance of embryonic stem cell identity
    Anja Nitzsche
    Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany
    PLoS ONE 6:e19470. 2011
    ..Based on these findings we propose that a dynamic placement of cohesin by pluripotency transcription factors contributes to a chromosome organization supporting the ESC expression program...
  7. doi request reprint Combined RNAi and localization for functionally dissecting long noncoding RNAs
    Debojyoti Chakraborty
    University of Technology Dresden, University Hospital and Medical Faculty Carl Gustav Carus, Department of Medical Systems Biology, Dresden, Germany
    Nat Methods 9:360-2. 2012
    ..Using this technique we identified transcripts that regulate mouse embryonic stem cell identity...
  8. pmc SeLOX--a locus of recombination site search tool for the detection and directed evolution of site-specific recombination systems
    Vineeth Surendranath
    Max Planck Institute for the Molecular Cell Biology and Genetics, Dresden, Germany
    Nucleic Acids Res 38:W293-8. 2010
    ..SeLOX is freely available at http://selox.mpi-cbg.de/cgi-bin/selox/index...
  9. doi request reprint Polycomb group ring finger 1 cooperates with Runx1 in regulating differentiation and self-renewal of hematopoietic cells
    Katharina Ross
    University Hospital Carl Gustav Carus and Medical Faculty, University of Technology Dresden, Dresden, Germany
    Blood 119:4152-61. 2012
    ..The results of the present study uncover a link between transcriptional and epigenetic regulation that is required for hematopoietic differentiation...
  10. pmc A genome-scale DNA repair RNAi screen identifies SPG48 as a novel gene associated with hereditary spastic paraplegia
    Mikołaj Słabicki
    Max Planck Institute for Molecular Cell Biology and Genetics, Dresden, Germany
    PLoS Biol 8:e1000408. 2010
    ..The discovery that proteins forming a novel protein complex are required for efficient HR-DSBR and are mutated in patients suffering from HSP suggests a link between HSP and DNA repair...
  11. doi request reprint In vitro evolution and analysis of HIV-1 LTR-specific recombinases
    Frank Buchholz
    Max Planck Institute for Molecular Cell Biology and Genetics, Pfotenhauerstrasse 108, 01307 Dresden, Germany
    Methods 53:102-9. 2011
    ..We furthermore provide protocols that are utilized for the investigation of Tre's antiretroviral activity in infected tissue cultures as well as in infected humanized Rag2(-/-)γc(-/-) mice...
  12. pmc PhenoFam-gene set enrichment analysis through protein structural information
    Maciej Paszkowski-Rogacz
    Max Planck Institute of Molecular Cell Biology and Genetics, Pfotenhauerstr, 108, 01307 Dresden, Germany
    BMC Bioinformatics 11:254. 2010
    ..However, a convenient tool that combines these two features to aid in high-throughput data analysis has not been developed yet. In order to fill this niche, we developed the user-friendly, web-based application, PhenoFam...
  13. pmc Comparative profiling identifies C13orf3 as a component of the Ska complex required for mammalian cell division
    Mirko Theis
    Max Planck Institute for Molecular Cell Biology and Genetics, Dresden, Germany
    EMBO J 28:1453-65. 2009
    ..All together, these data identify C13orf3 as an important factor for metaphase to anaphase progression and highlight the potential of combined RNAi screening and protein localisation analyses...
  14. ncbi request reprint Functional genomic analysis of cell division by endoribonuclease-prepared siRNAs
    Ralf Kittler
    Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany
    Cell Cycle 4:564-7. 2005
    ..Future genome-wide studies with esiRNA, using image-based assays and video microscopy, will help provide novel insights on the molecular mechanisms that govern cell division in mammalian cells...
  15. doi request reprint Designing efficient and specific endoribonuclease-prepared siRNAs
    Vineeth Surendranath
    Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany
    Methods Mol Biol 942:193-204. 2013
    ..J RNAi Gene Silencing 2:181, 2006; Kittler et al., Nat Methods 4:337-344, 2007). Within this chapter we describe design criteria for the generation of target-optimized esiRNAs...
  16. pmc From RNAi screens to molecular function in embryonic stem cells
    Li Ding
    University Hospital Carl Gustav Carus and Medical Faculty, University of Technology Dresden, Fetscherstr 74, 01307, Dresden, Germany
    Stem Cell Rev 8:32-42. 2012
    ..Furthermore, we provide a perspective on how to streamline the molecular characterization following the initial phenotypic description utilizing bacterial artificial chromosome (BAC) transgenesis...
  17. ncbi request reprint Production of endoribonuclease-prepared short interfering RNAs for gene silencing in mammalian cells
    Ralf Kittler
    Max Planck Institute for Molecular Cell Biology and Genetics, Dresden, Germany
    Nat Methods 2:779-84. 2005
  18. doi request reprint Dre recombinase, like Cre, is a highly efficient site-specific recombinase in E. coli, mammalian cells and mice
    Konstantinos Anastassiadis
    Center for Regenerative Therapies Dresden, BioInnovationsZentrum Technische Universitaet Dresden, Am Tatzberg 47, 01307 Dresden, Germany
    Dis Model Mech 2:508-15. 2009
    ..Hence, we add another set of efficient tools to the genomic toolbox, which will enable the development of more sophisticated mouse models for the analysis of gene function and disease...
  19. doi request reprint The histone demethylase UTX regulates stem cell migration and hematopoiesis
    Sebastian Thieme
    Department of Pediatrics, University Clinic Carl Gustav Carus Dresden, Dresden, Germany
    Blood 121:2462-73. 2013
    ..Additionally, we found that UTX knockdown in zebrafish significantly impairs SDF-1/CXCR4-dependent migration of primordial germ cells. Our data suggest that UTX is a critical regulator for stem cell migration and hematopoiesis...
  20. doi request reprint A genome-scale RNAi screen for Oct4 modulators defines a role of the Paf1 complex for embryonic stem cell identity
    Li Ding
    Max Planck Institute for Molecular Cell Biology and Genetics, Dresden, Germany
    Cell Stem Cell 4:403-15. 2009
    ..We propose that the Paf1C plays an important role in maintaining ESC identity...
  21. pmc HOT1 is a mammalian direct telomere repeat-binding protein contributing to telomerase recruitment
    Dennis Kappei
    Medical Systems Biology, Faculty of Medicine Carl Gustav Carus, University Cancer Center, Dresden University of Technology, 01307 Dresden, Germany
    EMBO J 32:1681-701. 2013
    ..Collectively, these findings suggest that HOT1 supports telomerase-dependent telomere elongation...
  22. ncbi request reprint Minimizing the risk of reporting false positives in large-scale RNAi screens
    Christophe J Echeverri
    Cenix BioScience GmbH, Tatzberg 47, Dresden, 10307, Germany
    Nat Methods 3:777-9. 2006
    ....
  23. doi request reprint Production of Endoribonuclease-Prepared Short Interfering RNAs (esiRNAs) for Specific and Effective Gene Silencing in Mammalian Cells
    Anne Kristin Heninger
    Max Planck Institute of Molecular Cell Biology and Genetics, 01307 Dresden, Germany
    CSH Protoc 2007:pdb.prot4824. 2007
    ..PCR products flanked with T7 promoter sequences are generated, transcribed, and annealed. The resulting long dsRNA is enzymatically digested into a pool of overlapping esiRNAs, which are subsequently spin-column-purified...
  24. pmc RNA interference rescue by bacterial artificial chromosome transgenesis in mammalian tissue culture cells
    Ralf Kittler
    Max Planck Institute for Molecular Cell Biology and Genetics, 01307 Dresden, Germany
    Proc Natl Acad Sci U S A 102:2396-401. 2005
    ..We show that this technique can be extended to allow the creation of tagged transgenes, expressed at physiological levels, for the further study of gene function...