Oliver D. King
Scientist
Boston Biomedical Research Institute
64 Grove Street
Watertown, MA 02472
king@bbri.org

2004-2007: Postdoctoral Associate, Whitehead Institute, Lindquist Lab.
2001-2004: Postdoctoral Fellow, Harvard Medical School, Roth Lab.
2001: PhD in Mathematics, UC Berkeley, supervised by Richard Borcherds.
        (Thesis: A mass formula for unimodular lattices with no roots)
1999: MS in Computer Science, UC Berkeley, supervised by David Forsyth.

Publications:

  1. The tip of the iceberg: RNA-binding proteins with prion-like domains in neurodegenerative disease.
    O.D. King, A.D. Gitler and J. Shorter. Brain Research, in press.
  2. An open system for automatic home-cage behavioral analysis and its application to male and female mouse models of Huntington's disease.
    K. Zarringhalam, M. Ka, Y.H. Kook, J.I. Terranova, Y. Suh, O.D. King* and M. Um* (* co-corresponding authors). Behavioural Brain Research, in press.
  3. A yeast functional screen predicts new candidate ALS disease genes.
    J. Couthouis, M.P. Hart, J. Shorter, M. Dejesus-Hernandez, R. Erion, R. Oristano, A.X. Liu, D. Ramos, N. Jethava, D. Hosangadi, J. Epstein, A. Chiang, Z. Diaz, T. Nakaya, F. Ibrahim, H.J. Kim, J.A. Solski, K.L. Williams, J. Mojsilovic-Petrovic, C. Ingre, K. Boylan, N.R. Graff-Radford, D.W. Dickson, D. Clay-Falcone, L. Elman, L. McCluskey, R. Greene, R.G. Kalb, V.M. Lee, J.Q. Trojanowski, A. Ludolph, W. Robberecht, P.M. Andersen, G.A. Nicholson, I.P. Blair, O.D. King, N.M. Bonini, V. Van Deerlin, R. Rademakers, Z. Mourelatos and A.D. Gitler. Proceedings of the National Academy of Sciences, vol. 108, no. 52, 20881-20889 (2011).
  4. The Rat Grimace Scale: a partially automated method for quantifying pain in the laboratory rat via facial expressions.
    S.G. Sotocinal, R.E. Sorge, A. Zaloum, A.H. Tuttle, L.J. Martin, J.S. Wieskopf, J.C.S. Mapplebeck, P. Wei, S. Zhan, S. Zhang, J.J. McDougall, O.D. King and J.S. Mogil. Molecular Pain, vol. 7:55 (2011).
  5. Opposing effects of glutamine and asparagine govern prion formation by intrinsically disordered proteins.
    R. Halfmann, S. Alberti, R. Krishnan, N. Lyle, C.W. O'Donnell, O.D. King, B. Berger, R.V. Pappu and S. Lindquist. Molecular Cell, vol. 43, no. 1, 72-84 (2011).
  6. Gene expression profiling of skeletal muscles treated with a soluble activin type IIB receptor.
    F. Rahimov, O.D King, L.C. Warsing, R.E. Powell, C.P. Emerson Jr, L.M. Kunkel and K.R.Wagner. Physiological Genomics, vol. 43, no. 8, 398-407 (2011).
  7. Knocking out multigene redundancies via cycles of sexual assortment and fluorescence selection.
    Y. Suzuki, R.P. St Onge, R. Mani, O.D. King, A. Heilbut, V.M. Labunskyy, W. Chen, L. Pham, L.V. Zhang, A.H. Tong, C. Nislow, G. Giaever, V.N. Gladyshev, M. Vidal, P. Schow, J. Lehar and F.P. Roth. Nature Methods, vol. 8, no. 2, 158-164 (2011).
  8. Prion-like disorders: blurring the divide between transmissibility and infectivity.
    M. Cushman, B.S. Johnson, O.D. King, A.D. Gitler and J. Shorter. Journal of Cell Science, vol. 123, no. 8, 1191-1201 (2010).
  9. Spontaneous generation of prion infectivity in fatal familial insomnia knockin mice.
    W.S. Jackson, A.W. Borkowski, H. Faas, A.D. Steele, O.D. King, N. Watson, A. Jasanoff and S. Lindquist. Neuron, vol. 63, no. 4, 438-450 (2009).
  10. A systematic survey identifies prions and illuminates sequence features of prionogenic proteins.
    S. Alberti, R. Halfmann, O. King, A. Kapila and S. Lindquist, Cell, vol. 137, no. 1, 146-158 (2009).
  11. Bridging high-throughput genetic and transcriptional data reveals cellular responses to alpha-synuclein toxicity.
    E. Yeger-Lotem, L. Riva, L.J. Su, A.D. Gitler, A.G. Cashikar, O.D. King, P.K. Auluck, M.L. Geddie, J.S. Valastyan, D.R. Karger, S. Lindquist and E. Fraenkel, Nature Genetics, vol. 41, no. 3, 316-323 (2009).
  12. Heat shock factor 1 regulates lifespan as distinct from disease onset in prion disease.
    A.D. Steele, G. Hutter, W.S. Jackson, F.L. Heppner, A.W. Borkowski, O.D. King, G.J. Raymond, A. Aguzzi and S. Lindquist, Proceedings of the National Academy of Sciences, vol. 105, no. 36, 13626-13631 (2008).
  13. Combining guilt-by-association and guilt-by-profiling to predict Saccharomyces cerevisiae gene function.
    W. Tian, L.V. Zhang, M. Tasan, F.D. Gibbons, O.D. King, J. Park, Z. Wunderlich, J.M. Cherry and F.P. Roth, Genome Biology, vol. 9 (Suppl 1): S7 (2008).
  14. Diminishing apoptosis by deletion of Bax or overexpression of Bcl-2 does not protect against infectious prion toxicity in vivo. [© 2007 by The Society for Neuroscience]
    A.D. Steele, O.D. King, W.S. Jackson, C.A. Hetz, A.W. Borkowski, P. Thielen, R. Wollmann and S. Lindquist, Journal of Neuroscience, vol. 27, no. 47, 13022-13027 (2007).
  15. The evolution of bet-hedging adaptations to rare scenarios.
    O.D. King and J. Masel, Theoretical Population Biology, vol. 72, no. 4, 560-575 (2007).
  16. The power of automated high-resolution behavior analysis revealed by its application to mouse models of Huntington's and prion diseases. [Supplement]
    A.D. Steele, W.S. Jackson, O.D. King and S. Lindquist, Proceedings of the National Academy of Sciences, vol. 104, no. 6, 1983-1988 (2007).
  17. The loss of adaptive plasticity during long periods of environmental stasis. [Appendices] [© 2007 by The University of Chicago]
    J. Masel, O.D. King and H. Maughan, American Naturalist, vol. 169, no. 1, 38-46 (2007).
  18. Binary templates for comma-free DNA codes.
    O.D. King and P. Gaborit, Discrete Applied Mathematics (Computational Molecular Biology Series, Issue V), vol. 155, no. 6-7, 831-839 (2007).
  19. Motifs, themes and thematic maps of an integrated S. cerevisiae interaction network.
    L.V. Zhang, O.D. King, S.L. Wong, D.S. Goldberg, A.H.Y. Tong, G. Lesage, B. Andrews, H. Bussey, C. Boone and F.P. Roth, Journal of Biology, vol. 4:6, 13pp (2005).
  20. Linear constructions for DNA codes. [Tables]
    P. Gaborit and O.D. King, Theoretical Computer Science, vol. 334, 99-113 (2005).
  21. Comment on 'Subgraphs in random networks'.
    O.D. King, Physical Review E, vol. 70, no. 5, 058101 (2004).
  22. Combining biological networks to predict genetic interactions.
    S.L. Wong, L.V. Zhang, A.H.Y. Tong, Z. Li, D.S. Goldberg, O.D. King, G. Lesage, M. Vidal, B. Andrews, H. Bussey, C. Boone and F.P. Roth, Proceedings of the National Academy of Sciences, vol. 101, no. 44, 15682-15687 (2004).
  23. Predicting co-complexed protein pairs using genomic and proteomic data integration.
    L.V. Zhang, S.L. Wong, O.D. King and F.P. Roth, BMC Bioinformatics, vol. 5:38, 15pp (2004).
  24. Predicting protein complex membership using probabilistic network reliability.
    S. Asthana, O.D. King, F.D. Gibbons and F.P. Roth, Genome Research, vol. 14, no. 6, 1170-1175 (2004).
  25. Intensity-based protein identification by machine learning from a library of tandem mass spectra.
    J.E. Elias, F.D. Gibbons, O.D. King, F.P. Roth and S.P. Gygi, Nature Biotechnology, vol. 22, no. 2, 214-219 (2004).
  26. Bounds for DNA codes with constant GC-content.
    O.D. King, Electronic Journal of Combinatorics, vol. 10, no. 1, #R33 13pp (2003).
  27. A non-parametric model for transcription factor binding sites.
    O.D. King and F.P. Roth, Nucleic Acids Research, vol. 31, no. 19, e116 8pp (2003).
  28. Characterizing gene sets with FuncAssociate.
    G.F. Berriz, O.D. King, B. Bryant, C. Sander and F.P. Roth, Bioinformatics, vol. 19, no. 18, 2502-2504 (2003).
  29. Predicting phenotype from patterns of annotation.
    O.D. King, J.C. Lee, A.M. Dudley, D.M. Janse, G.M. Church and F.P. Roth, Bioinformatics (Intelligent Systems in Molecular Biology Proceedings Issue), vol. 19, suppl. 1, i183-i189 (2003).
  30. Predicting gene function from patterns of annotation.
    O.D. King, R.E. Foulger, S.S. Dwight, J.V. White and F.P. Roth, Genome Research, vol. 13, no. 5, 896-904 (2003).
  31. GoFish finds genes with combinations of Gene Ontology attributes.
    G.F. Berriz, J.V. White, O.D. King and F.P. Roth, Bioinformatics, vol. 19, no. 6, 788-789 (2003).
  32. A mass formula for unimodular lattices with no roots. [Table]
    O.D. King, Mathematics of Computation, vol. 72, no. 242, 839-863 (2003).
  33. Learning a semantic space from user's relevance feedback for image retrieval.
    X. He, O. King, W.-Y. Ma, M. Li and H.-J. Zhang, IEEE Transactions on Circuits and Systems for Video Technology, vol. 13, 39-48 (2003).
  34. The mass of extremal doubly-even self-dual codes of length 40.
    O.D. King, IEEE Transactions on Information Theory, vol. 47, no. 6, 2558-2560 (2001).
  35. Estimation of singular values of very large matrices using random sampling.
    M. Kobayashi, G. Dupret, O. King and H. Samukawa, Computers and Mathematics with Applications, vol. 42, 1331-1352 (2001).
  36. How does CONDENSATION behave with a finite number of samples?
    O. King and D.A. Forsyth, Proc. 6th European Conference on Computer Vision (ECCV), Springer LNCS vol. 1842, 695-709 (2000).
  37. Multi-perspective retrieval, ranking and visualization of web data.
    M. Kobayashi, G. Dupret, O. King, H. Samukawa and K. Takeda, Int. Symposium on Research, Development & Practices in Digital Libraries (ISDL), 159-162 (1999).
  38. On global parametric motion estimation with illumination and lens distortion correction.
    Y. Altunbasak, A.J. Patti and O.D. King, Proc. IEEE Int. Conference on Image Processing (ICIP), 686-690 (1999).