Mike Tyers

Summary

Affiliation: University of Edinburgh
Country: UK

Publications

  1. pmc The BioGRID Interaction Database: 2011 update
    Chris Stark
    Samuel Lunenfeld Research Institute, Mount Sinai Hospital, Toronto M5G 1X5, Canada
    Nucleic Acids Res 39:D698-704. 2011
  2. pmc Cross-species discovery of syncretic drug combinations that potentiate the antifungal fluconazole
    Michaela Spitzer
    Wellcome Trust Centre for Cell Biology, School of Biological Sciences, University of Edinburgh, Edinburgh, UK
    Mol Syst Biol 7:499. 2011
  3. pmc The Protein-Protein Interaction tasks of BioCreative III: classification/ranking of articles and linking bio-ontology concepts to full text
    Martin Krallinger
    Structural Biology and Biocomputing Programme, Spanish National Cancer Research Centre CNIO, Madrid, Spain
    BMC Bioinformatics 12:S3. 2011
  4. pmc A global protein kinase and phosphatase interaction network in yeast
    Ashton Breitkreutz
    Centre for Systems Biology, Samuel Lunenfeld Research Institute, 600 University Avenue, Toronto, Ontario, M5G 1X5, Canada
    Science 328:1043-6. 2010
  5. pmc The BioGRID Interaction Database: 2008 update
    Bobby Joe Breitkreutz
    Samuel Lunenfeld Research Institute, Mount Sinai Hospital, Toronto, Canada
    Nucleic Acids Res 36:D637-40. 2008
  6. pmc PhosphoGRID: a database of experimentally verified in vivo protein phosphorylation sites from the budding yeast Saccharomyces cerevisiae
    Chris Stark
    Centre for Systems Biology, Samuel Lunenfeld Research Institute, 600 University Avenue, Toronto, Ontario M5G 1X5, Canada
    Database (Oxford) 2010:bap026. 2010
  7. pmc Stratus not altocumulus: a new view of the yeast protein interaction network
    Nizar N Batada
    Samuel Lunenfeld Research Institute, Mount Sinai Hospital, Toronto, Canada
    PLoS Biol 4:e317. 2006
  8. pmc The GRID: the General Repository for Interaction Datasets
    Bobby Joe Breitkreutz
    Samuel Lunenfeld Research Institute, Mount Sinai Hospital, University Avenue, Toronto, M5G 1X5, Canada
    Genome Biol 4:R23. 2003
  9. pmc Structure of an SspH1-PKN1 complex reveals the basis for host substrate recognition and mechanism of activation for a bacterial E3 ubiquitin ligase
    Alexander F A Keszei
    Lunenfeld Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, Ontario, Canada
    Mol Cell Biol 34:362-73. 2014
  10. pmc SCFCdc4 enables mating type switching in yeast by cyclin-dependent kinase-mediated elimination of the Ash1 transcriptional repressor
    Qingquan Liu
    School of Biological Sciences, University of Edinburgh, Mayfield Road, Edinburgh EH9 3JR, United Kingdom
    Mol Cell Biol 31:584-98. 2011

Collaborators

Detail Information

Publications38

  1. pmc The BioGRID Interaction Database: 2011 update
    Chris Stark
    Samuel Lunenfeld Research Institute, Mount Sinai Hospital, Toronto M5G 1X5, Canada
    Nucleic Acids Res 39:D698-704. 2011
    ..The entire BioGRID 3.0 data collection may be downloaded in multiple file formats, including PSI MI XML. Source code for BioGRID 3.0 is freely available without any restrictions...
  2. pmc Cross-species discovery of syncretic drug combinations that potentiate the antifungal fluconazole
    Michaela Spitzer
    Wellcome Trust Centre for Cell Biology, School of Biological Sciences, University of Edinburgh, Edinburgh, UK
    Mol Syst Biol 7:499. 2011
    ..The systematic repurposing of approved drugs against a spectrum of pathogens thus identifies network vulnerabilities that may be exploited to increase the activity and repertoire of antifungal agents...
  3. pmc The Protein-Protein Interaction tasks of BioCreative III: classification/ranking of articles and linking bio-ontology concepts to full text
    Martin Krallinger
    Structural Biology and Biocomputing Programme, Spanish National Cancer Research Centre CNIO, Madrid, Spain
    BMC Bioinformatics 12:S3. 2011
    ....
  4. pmc A global protein kinase and phosphatase interaction network in yeast
    Ashton Breitkreutz
    Centre for Systems Biology, Samuel Lunenfeld Research Institute, 600 University Avenue, Toronto, Ontario, M5G 1X5, Canada
    Science 328:1043-6. 2010
    ..An extensive backbone of kinase-kinase interactions cross-connects the proteome and may serve to coordinate diverse cellular responses...
  5. pmc The BioGRID Interaction Database: 2008 update
    Bobby Joe Breitkreutz
    Samuel Lunenfeld Research Institute, Mount Sinai Hospital, Toronto, Canada
    Nucleic Acids Res 36:D637-40. 2008
    ..Source code for the BioGRID and the linked Osprey network visualization system is now freely available without restriction...
  6. pmc PhosphoGRID: a database of experimentally verified in vivo protein phosphorylation sites from the budding yeast Saccharomyces cerevisiae
    Chris Stark
    Centre for Systems Biology, Samuel Lunenfeld Research Institute, 600 University Avenue, Toronto, Ontario M5G 1X5, Canada
    Database (Oxford) 2010:bap026. 2010
    ..Database URL: http://phosphogrid.org/..
  7. pmc Stratus not altocumulus: a new view of the yeast protein interaction network
    Nizar N Batada
    Samuel Lunenfeld Research Institute, Mount Sinai Hospital, Toronto, Canada
    PLoS Biol 4:e317. 2006
    ..In turn, control of the activity of the most highly connected proteins may be vital. Indeed, we find that a fluctuation in steady-state levels of the most connected proteins is minimized...
  8. pmc The GRID: the General Repository for Interaction Datasets
    Bobby Joe Breitkreutz
    Samuel Lunenfeld Research Institute, Mount Sinai Hospital, University Avenue, Toronto, M5G 1X5, Canada
    Genome Biol 4:R23. 2003
    ..Interactions parsed in The GRID can be viewed in graphical form with a versatile visualization tool called Osprey...
  9. pmc Structure of an SspH1-PKN1 complex reveals the basis for host substrate recognition and mechanism of activation for a bacterial E3 ubiquitin ligase
    Alexander F A Keszei
    Lunenfeld Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, Ontario, Canada
    Mol Cell Biol 34:362-73. 2014
    ..These regulatory features are conserved in other IpaH-substrate interactions. Our results explain the mechanism whereby substrate recognition and enzyme autoregulation are coupled in this class of bacterial ubiquitin ligases. ..
  10. pmc SCFCdc4 enables mating type switching in yeast by cyclin-dependent kinase-mediated elimination of the Ash1 transcriptional repressor
    Qingquan Liu
    School of Biological Sciences, University of Edinburgh, Mayfield Road, Edinburgh EH9 3JR, United Kingdom
    Mol Cell Biol 31:584-98. 2011
    ..The phosphorylation-dependent elimination of Ash1 by the ubiquitin-proteasome system thus underpins developmental asymmetry in budding yeast...
  11. ncbi request reprint Genome-wide surveys for phosphorylation-dependent substrates of SCF ubiquitin ligases
    Xiaojing Tang
    Samuel Lunenfeld Research Institute, Mount Sinai Hospital, Toronto, Ontario, USA
    Methods Enzymol 399:433-58. 2005
    ..Both methods have identified novel substrates of Cdc4 and may, in principle, be used to identify numerous new substrates of other SCF and SCF-like complexes from yeast to humans...
  12. doi request reprint An allosteric inhibitor of substrate recognition by the SCF(Cdc4) ubiquitin ligase
    Stephen Orlicky
    Center for Systems Biology, Samuel Lunenfeld Research Institute, Mount Sinai Hospital, Toronto, Canada
    Nat Biotechnol 28:733-7. 2010
    ..Mammalian WD40 domain proteins may exhibit similar allosteric responsiveness and hence represent an extensive class of druggable target...
  13. ncbi request reprint Structural and functional analysis of Saccharomyces cerevisiae Mob1
    Serge Mrkobrada
    Program in Molecular Biology and Cancer, Samuel Lunenfeld Research Institute, Mount Sinai Hospital, Toronto, Ontario Canada M5G 1X5
    J Mol Biol 362:430-40. 2006
    ..In vivo functional analysis demonstrates that Mob1 mutants that target helix H0 or its reciprocal binding site are biologically compromised. The N-terminal region of Mob1 thus contains structural elements that are functionally important...
  14. pmc Comprehensive curation and analysis of global interaction networks in Saccharomyces cerevisiae
    Teresa Reguly
    Samuel Lunenfeld Research Institute, Mount Sinai Hospital, Toronto ON M5G 1X5, Canada
    J Biol 5:11. 2006
    ..Although a vast number of well substantiated interactions are recorded in the scientific literature, these data have not yet been distilled into networks that enable system-level inference...
  15. pmc The GRID: The General Repository for Interaction Datasets
    Bobby Joe Breitkreutz
    Samuel Lunenfeld Research Institute, Mount Sinai Hospital, 600 University Avenue, Toronto M5G 1X5, Canada
    Genome Biol 3:PREPRINT0013. 2002
    ..Interactions parsed in the GRID can be viewed in graphical form with a versatile visualization tool called Osprey...
  16. ncbi request reprint Ccr4 contributes to tolerance of replication stress through control of CRT1 mRNA poly(A) tail length
    Robert N Woolstencroft
    Samuel Lunenfeld Research Institute, Mount Sinai Hospital, Toronto, M5G 1X5, Canada
    J Cell Sci 119:5178-92. 2006
    ..These results implicate the coordinated regulation of Crt1 via Ccr4 and Dun1 as a crucial nodal point in the response to DNA replication stress...
  17. doi request reprint Cell size control: governed by a spatial gradient
    Ricardo Almeida
    Wellcome Trust Centre for Cell Biology, School of Biological Sciences, The University of Edinburgh, Edinburgh, UK
    Dev Cell 17:3-4. 2009
    ..Two recent studies in Nature in fission yeast demonstrate that a gradient of the polarity factor Pom1 is a sensor of cell length that determines the onset of Cdc2 activation and mitosis...
  18. pmc Structure-templated predictions of novel protein interactions from sequence information
    Doron Betel
    Samuel Lunenfeld Research Institute, Mt Sinai Hospital, Toronto, Ontario, Canada
    PLoS Comput Biol 3:1783-9. 2007
    ..These results demonstrate that new protein interactions can be predicted exclusively from sequence information...
  19. pmc Systematic validation and atomic force microscopy of non-covalent short oligonucleotide barcode microarrays
    Michael A Cook
    Centre for Systems Biology, Samuel Lunenfeld Research Institute, Mount Sinai Hospital, Toronto, Ontario, Canada
    PLoS ONE 3:e1546. 2008
    ..However, costs of current methods for microarray construction, whether by in situ oligonucleotide synthesis or ex situ coupling of modified oligonucleotides to the slide surface are often prohibitive to large-scale analyses...
  20. pmc Evolutionary and physiological importance of hub proteins
    Nizar N Batada
    Samuel Lunenfeld Research Institute, Mount Sinai Hospital, Toronto, Canada
    PLoS Comput Biol 2:e88. 2006
    ..We conclude that hub proteins are more important for cellular growth rate and under tight regulation but are not slow evolving...
  21. pmc BioGRID REST Service, BiogridPlugin2 and BioGRID WebGraph: new tools for access to interaction data at BioGRID
    Andrew G Winter
    Wellcome Trust Centre for Cell Biology and School of Biological Sciences, The University of Edinburgh, Edinburgh, UK
    Bioinformatics 27:1043-4. 2011
    ..org/download.php (BiogridPlugin2, v2.1 download), http://wiki.thebiogrid.org/doku.php/biogridplugin2 (BiogridPlugin2 help) and http://tyerslab.bio.ed.ac.uk/tools/BioGRID_webgraph.php(BioGRID WebGraph)...
  22. pmc Osprey: a network visualization system
    Bobby Joe Breitkreutz
    Samuel Lunenfeld Research Institute, Mount Sinai Hospital, University Avenue, Toronto, M5G 1X5, Canada
    Genome Biol 4:R22. 2003
    ..Mouse-over functions allow rapid elaboration and organization of network diagrams in a spoke model format. User-defined large-scale datasets can be readily combined with Osprey for comparison of different methods...
  23. pmc A yeast chemical genetic screen identifies inhibitors of human telomerase
    Lai Hong Wong
    Wellcome Trust Centre for Cell Biology, King s Buildings, University of Edinburgh, Mayfield Road, Edinburgh EH9 3JR, UK
    Chem Biol 20:333-40. 2013
    ..These compounds represent probes for human telomerase function, and potential entry points for development of lead compounds against telomerase-positive cancers...
  24. pmc CNK and HYP form a discrete dimer by their SAM domains to mediate RAF kinase signaling
    Thanashan Rajakulendran
    Centre for Systems Biology, Samuel Lunenfeld Research Institute, Toronto, ON, Canada
    Proc Natl Acad Sci U S A 105:2836-41. 2008
    ..We present two docking-site models to account for how SAM domain dimerization might influence the formation of a higher-order CNK/HYP/KSR complex...
  25. pmc Combined zebrafish-yeast chemical-genetic screens reveal gene-copper-nutrition interactions that modulate melanocyte pigmentation
    Hironori Ishizaki
    Institute of Genetics and Molecular Medicine, MRC Human Genetics Unit and The University of Edinburgh, Western General Hospital, Edinburgh, UK
    Dis Model Mech 3:639-51. 2010
    ....
  26. ncbi request reprint Cell biology. Chemical genetics hits
    David S Bellows
    Samuel Lunenfeld Research Institute, Mount Sinai Hospital, Toronto, Ontario M5G 1X5, Canada
    Science 306:67-8. 2004
  27. pmc Conserved structural mechanisms for autoinhibition in IpaH ubiquitin ligases
    Yang Chieh Chou
    Samuel Lunenfeld Research Institute, Toronto, Ontario M5G 1X5, Canada
    J Biol Chem 287:268-75. 2012
    ....
  28. pmc Osprey: a network visualization system
    Bobby Joe Breitkreutz
    Samuel Lunenfeld Research Institute, Mount Sinai Hospital, 600 University Avenue, Toronto M5G 1X5, Canada
    Genome Biol 3:PREPRINT0012. 2002
    ..Mouse-over functions allow rapid elaboration and organization of network diagrams in a spoke model format. User-defined large-scale data sets can be readily combined with Osprey for comparison of different methods...
  29. pmc Phenotypic and transcriptional plasticity directed by a yeast mitogen-activated protein kinase network
    Ashton Breitkreutz
    Samuel Lunenfeld Research Institute, Mount Sinai Hospital, Toronto, Ontario M5G 1X5, Canada
    Genetics 165:997-1015. 2003
    ..This systems-level robustness may also account for the observed diversity of signals that trigger invasive growth...
  30. ncbi request reprint Structural basis for phosphodependent substrate selection and orientation by the SCFCdc4 ubiquitin ligase
    Stephen Orlicky
    Program in Molecular Biology and Cancer, Samuel Lunenfeld Research Institute, Mount Sinai Hospital, 600 University Avenue, M5G 1X5, Toronto, Ontario, Canada
    Cell 112:243-56. 2003
    ..These features account for the observed phosphorylation threshold in Sic1 recognition and suggest an equilibrium binding mode between a single receptor site in Cdc4 and multiple low-affinity CPD sites in Sic1...
  31. pmc A Loss of Function Analysis of Host Factors Influencing Vaccinia virus Replication by RNA Interference
    Philippa M Beard
    The Roslin Institute and Royal Dick School of Veterinary Studies, University of Edinburgh, Edinburgh, Midlothian, United Kingdom
    PLoS ONE 9:e98431. 2014
    ..This advancement in our understanding of the VACV life cycle provides a reliable knowledge base for the improvement of poxvirus-based vaccine vectors and development of anti-viral theraputics. ..
  32. ncbi request reprint A hitchhiker's guide to the cullin ubiquitin ligases: SCF and its kin
    Andrew R Willems
    Samuel Lunenfeld Research Institute, Mount Sinai Hospital, 600 University Avenue, Toronto, Canada, M5G 1X5
    Biochim Biophys Acta 1695:133-70. 2004
    ..Recent structural insights into SCF-like complexes have begun to illuminate aspects of substrate recognition and catalytic reaction mechanisms...
  33. doi request reprint An allosteric inhibitor of the human Cdc34 ubiquitin-conjugating enzyme
    Derek F Ceccarelli
    Center for Systems Biology, Samuel Lunenfeld Research Institute, Mount Sinai Hospital, Toronto, Ontario M5G1X5, Canada
    Cell 145:1075-87. 2011
    ..E2 enzymes are thus susceptible to noncatalytic site inhibition and may represent a viable class of drug target in the UPS...
  34. pmc Benchmarking of the 2010 BioCreative Challenge III text-mining competition by the BioGRID and MINT interaction databases
    Andrew Chatr-Aryamontri
    School of Biological Sciences, University of Edinburgh, Edinburgh EH9 3JR, UK
    BMC Bioinformatics 12:S8. 2011
    ..One of the tasks of the Biocreative 2010 Challenge III was devoted to the evaluation of NLP systems developed to identify articles for curation and extraction of protein-protein interaction (PPI) data...
  35. ncbi request reprint From large networks to small molecules
    Jeffrey R Sharom
    Samuel Lunenfeld Research Institute, Mount Sinai Hospital, 600 University Avenue, Toronto, Ontario, M5G 1X5, Canada
    Curr Opin Chem Biol 8:81-90. 2004
    ..Although the robust nature of cellular networks usually resists the action of single agents, they may be susceptible to rationally designed combinations of small molecules able to collectively shift network behavior...
  36. ncbi request reprint From genomics to proteomics
    Mike Tyers
    Samuel Lunenfeld Research Institute, Mount Sinai Hospital, and Department of Medical Genetics and Microbiology, University of Toronto, Toronto, Canada M5G 1X5
    Nature 422:193-7. 2003
    ..But further technological improvements, organization of international proteomics projects and open access to results are needed for proteomics to fulfil its potential...
  37. ncbi request reprint Size control goes global
    Mike Cook
    Samuel Lunenfeld Research Institute, Mount Sinai Hospital, 600 University Avenue, Toronto, Ontario, Canada M5G 1X5
    Curr Opin Biotechnol 18:341-50. 2007
    ..While the plethora of genes that alter size phenotypes at present defies a unified model, systems-level analysis suggests many new inroads into the longstanding enigma of size control...