Amoolya Singh

  • Program Years: 2002-2006
  • Academic Institution: University of California, Berkeley
  • Field of Study: Computational Biology
  • Academic Advisor: Richard Karp
  • Practicum(s):
    Pacific Northwest National Laboratory (2004)
  • Degree(s):
    Ph.D. Computer Science, designated emphasis in Computational and Genomic Biology, University of California, Berkeley, 2006
    M.S. Computer Science, University of California, Berkeley, 2000
    B.S. Biology and Computer Science, Carnegie Mellon, 1997

Current Status

  • Status: Group Lead & Senior Scientist, Amyris Inc.
  • Research Area: Data Science & Computational Biology


Keynote speaker, International Workshop for Bio-Design Automation (2016)
Session co-chair, Society for Industrial Microbiology (2014, 2015)


Wei Y., X. Wang, J. Liu, I. Nemenman, A.H. Singh, H. Weiss, B.R. Levin (2011). The population dynamics of bacteria in physically structured habitats and the adaptive virtue of random motility. Proc Natl Acad Sci USA 108(10):4047-4052.

Singh B.K., A.H. Singh, D. Mascarenhas (2010). A nuclear complex of Rictor and IRS2 is associated with albuminuria in diabetic mice. Metabolic Syndrome and Related Disorders 8(4):1-10.

Singh A.H., T. Doerks, P. Bork (2009). Evolution of light-mediated microbial pathways. J Bacteriol 191(1)32-41.

Singh A.H., D.M.Wolf, P.Wang, A.P. Arkin (2008). Modularity of stress response evolution. Proc Natl Acad Sci USA 105(21):7500-7505.

Singh A.H. (2008). Evolution, Modularity, and Dynamics of Gene Regulatory Networks. VDM Verlag, Saarbrücken Germany. ISBN 978-3-8364-9446-5.

Raes J., E.D. Harrington, A.H. Singh, P. Bork (2007). Protein function space: viewing the limits or limited by our view? Curr Op in Struct Biol 17(3):362-369.

Harrington E.D., A.H. Singh, T. Doerks, I. Letunic, C. von Mering, L.J. Jensen, J. Raes, P. Bork (2007). Quantitative assessment of protein function prediction from metagenomics shotgun sequences. Proc Natl Acad Sci USA 104(35):13913-13918.

Mascarenhas D., B.K. Singh, A.H. Singh, S. Vander Veer (2007) Early adoption of new drug treatments: the role of continuing medical education and physician adaptivity. Crit Pathw Cardiol 6(1):30-40.

Singh A., A. Konrad, A.D. Joseph (2001). Performance evaluation of UDP Lite for cellular video. ACM 11th Intl. Workshop on Network & Operating Systems Support for Digital Audio & Video, Port Jefferson, NY.


Computational Science Graduate Fellowship, US Dept. of Energy (2002-2006)
Excellence in Promoting Diversity, Physical Biosciences Division, Lawrence Berkeley Laboratory (2005)
Nokia Scholarship for Outstanding Academic Performance (2000)
Hon. Mention, Computing Research Award for Outstanding Undergraduates (1997)