Postdoc, 2005, University of California, Berkeley/Lawrence Berkeley National Laboratory
Research in my group includes both computational/theoretical and experimental approaches to understanding the evolution of microorganisms, emphasizing a 'systems-level' perspective. Some areas of special interest include:
Tools for detecting natural selection in microbes
The evolutionary origin of gene families
Mining metagenomic sequence data
Experimental evolution of microbes
Modeling bacterial ecology
Gene regulatory networks in bacteria
Protein structure and design
I have enjoyed teaching a variety of classes at MIT, spanning my own diverse interests in microbiology, computer algorithms, and thermodynamics of biomolecules. I am currently looking forward to teaching a new class on microbial evolution and genetics.
Shapiro B.J. and Alm E.J. Comparing Patterns of Natural Selection Across Species Using Selective Signatures. PloS Genetics. In press.
Price, M.N., Arkin, A.P. and Alm, E.J.(*) (2006) The life-cycle of operons. PLoS Genetics, 2, e96
Alm, E., Huang, K. and Arkin, A. (2006) The evolution of two-component systems in bacteria reveals different strategies for niche adaptation. PLoS Comput Biol, 2, e143.
Alm, E. and Arkin, A.P. (2003) Biological networks. Curr Opin Struct Biol, 13, 193-202.
Alm, E. and Baker, D. (1999) Prediction of protein-folding mechanisms from free-energy landscapes derived from native structures. Proc Natl Acad Sci U S A, 96, 11305-11310.
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