Christoph Adami

Summary

Affiliation: California Institute of Technology
Country: USA

Publications

  1. ncbi Compensatory mutations cause excess of antagonistic epistasis in RNA secondary structure folding
    Claus O Wilke
    Digital Life Laboratory 136 93, California Institute of Technology, Pasadena, CA 91125, USA
    BMC Evol Biol 3:3. 2003
  2. ncbi Apparent dependence of protein evolutionary rate on number of interactions is linked to biases in protein-protein interactions data sets
    Jesse D Bloom
    Department of Chemistry and Digital Life Laboratory, 210 41, California Institute of Technology, Pasadena, CA 91125, USA
    BMC Evol Biol 3:21. 2003
  3. ncbi Evolutionary rate depends on number of protein-protein interactions independently of gene expression level: response
    Jesse D Bloom
    Department of Chemistry and Digital Life Laboratory, California Institute of Technology, Pasadena, CA 91125 USA
    BMC Evol Biol 4:14. 2004
  4. ncbi What is complexity?
    Christoph Adami
    Digital Life Laboratory 136 93, California Institute of Technology, Pasadena 91109, USA
    Bioessays 24:1085-94. 2002
  5. ncbi Why highly expressed proteins evolve slowly
    D Allan Drummond
    Program in Computation and Neural Systems and Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, CA 91125 4100, USA
    Proc Natl Acad Sci U S A 102:14338-43. 2005
  6. ncbi Evolution of mutational robustness
    Claus O Wilke
    Digital Life Laboratory, California Institute of Technology, Mail Code 136 93, Pasadena, CA 91125, USA
    Mutat Res 522:3-11. 2003
  7. ncbi Bifurcation into functional niches in adaptation
    Justin S White
    California Institute of Technology, Pasadena, CA 91125, USA
    Artif Life 10:135-44. 2004
  8. ncbi Evolution of robustness in digital organisms
    Jeffrey A Edlund
    California Institute of Technology, Pasadena, CA 91125, USA
    Artif Life 10:167-79. 2004
  9. ncbi Influence of chance, history, and adaptation on digital evolution
    Daniel A Wagenaar
    Department of Physics 103 33, California Institute of Technology, Pasadena, CA 91125, USA
    Artif Life 10:181-90. 2004
  10. ncbi Stability and the evolvability of function in a model protein
    Jesse D Bloom
    Department of Chemistry, California Institute of Technology, Pasadena, California 91125, USA
    Biophys J 86:2758-64. 2004

Collaborators

Detail Information

Publications20

  1. ncbi Compensatory mutations cause excess of antagonistic epistasis in RNA secondary structure folding
    Claus O Wilke
    Digital Life Laboratory 136 93, California Institute of Technology, Pasadena, CA 91125, USA
    BMC Evol Biol 3:3. 2003
    ..However, in a number of recent studies, a prevalence of antagonistic epistasis (the tendency of multiple mutations to have a mitigating rather than reinforcing effect) has been observed...
  2. ncbi Apparent dependence of protein evolutionary rate on number of interactions is linked to biases in protein-protein interactions data sets
    Jesse D Bloom
    Department of Chemistry and Digital Life Laboratory, 210 41, California Institute of Technology, Pasadena, CA 91125, USA
    BMC Evol Biol 3:21. 2003
    ..The strength and validity of this association has been called into question. Here we investigate how biases in high-throughput protein-protein interaction studies could lead to a spurious correlation...
  3. ncbi Evolutionary rate depends on number of protein-protein interactions independently of gene expression level: response
    Jesse D Bloom
    Department of Chemistry and Digital Life Laboratory, California Institute of Technology, Pasadena, CA 91125 USA
    BMC Evol Biol 4:14. 2004
  4. ncbi What is complexity?
    Christoph Adami
    Digital Life Laboratory 136 93, California Institute of Technology, Pasadena 91109, USA
    Bioessays 24:1085-94. 2002
    ....
  5. ncbi Why highly expressed proteins evolve slowly
    D Allan Drummond
    Program in Computation and Neural Systems and Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, CA 91125 4100, USA
    Proc Natl Acad Sci U S A 102:14338-43. 2005
    ..Our results suggest that proteins evolve at rates largely unrelated to their functions and can explain why highly expressed proteins evolve slowly across the tree of life...
  6. ncbi Evolution of mutational robustness
    Claus O Wilke
    Digital Life Laboratory, California Institute of Technology, Mail Code 136 93, Pasadena, CA 91125, USA
    Mutat Res 522:3-11. 2003
    ..We discuss empirical evidence for the evolution of mutational robustness, and speculate on its relevance for higher organisms...
  7. ncbi Bifurcation into functional niches in adaptation
    Justin S White
    California Institute of Technology, Pasadena, CA 91125, USA
    Artif Life 10:135-44. 2004
    ....
  8. ncbi Evolution of robustness in digital organisms
    Jeffrey A Edlund
    California Institute of Technology, Pasadena, CA 91125, USA
    Artif Life 10:167-79. 2004
    ..While such a recoding often requires sacrificing some replication speed, it is the best strategy for withstanding high rates of mutation...
  9. ncbi Influence of chance, history, and adaptation on digital evolution
    Daniel A Wagenaar
    Department of Physics 103 33, California Institute of Technology, Pasadena, CA 91125, USA
    Artif Life 10:181-90. 2004
    ..Populations that developed few computational "genes" in their original environment were unable to acquire them in the new environment...
  10. ncbi Stability and the evolvability of function in a model protein
    Jesse D Bloom
    Department of Chemistry, California Institute of Technology, Pasadena, California 91125, USA
    Biophys J 86:2758-64. 2004
    ..Our model also demonstrates that even in the absence of a fundamental biophysical tradeoff between stability and function, the speed with which function can evolve is limited by the stability requirement imposed on the protein...
  11. ncbi Selection for mutational robustness in finite populations
    Robert Forster
    Digital Life Laboratory, California Institute of Technology, Pasadena, CA 91125, USA
    J Theor Biol 243:181-90. 2006
    ..Our results show that quasispecies effects and neutral drift can occur concurrently, and that the relative importance of each is determined by the product of population size and mutation rate...
  12. ncbi Critical and near-critical branching processes
    Christoph Adami
    Digital Life Laboratory 136-93, California Institute of Technology, Pasadena, California 91125, USA
    Phys Rev E Stat Nonlin Soft Matter Phys 66:011907. 2002
    ..In the light of these, we discuss distributions of avalanche sizes in the Bak-Tang-Wiesenfeld sandpile model...
  13. ncbi Adaptive radiation from resource competition in digital organisms
    Stephanie S Chow
    Digital Life Laboratory 136-93, California Institute of Technology, Pasadena, CA 91125, USA
    Science 305:84-6. 2004
    ..A diverse pool of limiting resources is sufficient to cause adaptive radiation, which is manifest by the origin and maintenance of phenotypically and phylogenetically distinct groups of organisms...
  14. ncbi Thermodynamic prediction of protein neutrality
    Jesse D Bloom
    Division of Chemistry and Chemical Engineering 210 41, California Institute of Technology, Pasadena, CA 91125, USA
    Proc Natl Acad Sci U S A 102:606-11. 2005
    ..Our work unifies observations about the clustering of functional proteins in sequence space, and provides a basis for interpreting the response of proteins to substitutions in protein engineering applications...
  15. ncbi Selective pressures on genomes in molecular evolution
    Charles Ofria
    Computer Science and Engineering, Michigan State University, East Lansing, MI 48824, USA
    J Theor Biol 222:477-83. 2003
    ..This neutrality selection has important implications for the evolution of evolvability. We demonstrate each selective pressure in experiments with digital organisms...
  16. ncbi Digital genetics: unravelling the genetic basis of evolution
    Christoph Adami
    Keck Graduate Institute of Applied Life Sciences, 535 Watson Drive, Claremont, California 91711, USA
    Nat Rev Genet 7:109-18. 2006
    ....
  17. ncbi Evolution. Reducible complexity
    Christoph Adami
    Keck Graduate Institute of Applied Life Sciences, Claremont, CA 91711, USA
    Science 312:61-3. 2006
  18. ncbi The evolutionary origin of complex features
    Richard E Lenski
    Department of Microbiology and Molecular Genetics, Michigan State University, East Lansing, Michigan 48824, USA
    Nature 423:139-44. 2003
    ..In some cases, mutations that were deleterious when they appeared served as stepping-stones in the evolution of complex features. These findings show how complex functions can originate by random mutation and natural selection...
  19. ncbi Evolution of complex modular biological networks
    Arend Hintze
    Keck Graduate Institute of Applied Life Sciences, Claremont, California, USA
    PLoS Comput Biol 4:e23. 2008
    ..The combination of network modularity tools together with genetic interaction data constitutes a powerful approach to study and dissect the role of modularity in the evolution and function of biological networks...
  20. ncbi Computer science. What do robots dream of?
    Christoph Adami
    Keck Graduate Institute of Applied Life Sciences, Claremont, CA 91711, USA
    Science 314:1093-4. 2006