Alan Moses

Associate Professor
PhD, University of California - Berkeley
Cell & Systems Biology
Research Areas: 
Molecular Biology & Biotechnology, Systems Biology & Bioinformatics, Functional Genomics & Genetics, Molecular Evolution
Graduate Programs: 
Cell & Systems Biology, Ecology & Evolutionary Biology
Office phone: 
Lab phone: 
ESC 4073
ESC 4075

alan [dot] moses (at)utoronto [dot] ca


Department of Cell & Systems Biology
University of Toronto
25 Willcocks Street
Toronto, Ontario
Canada M5S 3B2

Lumba, S., Toh, S., Handfield, L., Swan, M., Liu, R., Youn, J., Cutler, S.R., Subramaniam, R., Provart, N.J., Moses, A., Desveaux, D., McCourt, P. (2014).  A Mesoscale Abscisic Acid Hormone Interactome Reveals a Dynamic Signaling Landscape in Arabidopsis. Developmental Cell. 29(3), 360-372. Abstract
Liti, G., Carter, D.M., Moses, A.M., Warringer, J., Parts, L., James, S.A., Davey, R.P., Roberts, I.N., Burt, A., Koufopanou, V., Tsai, I.J., Bergman, C.M., , (2009).  Population genomics of domestic and wild yeasts. Nature. 458, 337-341.
Ba, A.N.N., Pogoutse, A., Provart, N., Moses, A. (2009).  NLStradamus: a simple Hidden Markov Model for nuclear localization signal prediction. BMC Bioinformatics. 10, 202. Abstract
Moses, A.M., Durbin, R. (2008).  Inferring Selection on Amino Acid Preference in Protein Domains. Molecular Biology and Evolution.
Moses, A.M., Liku, M.E., Li, J.J., Durbin, R. (2007).  Regulatory evolution in proteins by turnover and lineage-specific changes of cyclin-dependent kinase consensus sites. PNAS. 104(45), 17713-8.
Moses, A., Heriche, J., Durbin, R. (2007).  Spatial clustering of phosphorylation site recognition motifs can be exploited to predict the targets of cyclin-dependent kinase. Genome Biology.. 8(2), R23.
Moses, A., Pollard, D., Nix, D., Iyer, V., Li, X., Biggin, M., Eisen, M. (2006).  Largescale turnover of functional transcription factor binding sites in Drosophila. PLoS Computational Biology. Oct 13;. 2(10),
Pollard, D., Moses, A., Iyer, V., Eisen, M. (2006).  Detecting the limits of regulatory element conservation and divergence estimation using pairwise and multiple alignments.. BMC Bioinformatics. Aug 14;. 7(1), 376.
Pollard, D., Iyer, V., Moses, A., Eisen, M. (2006).  Whole Genome Phylogeny of the Drosophila melanogaster Species Subgroup: Widespread Discordance with Species Tree & Evidence for Incomplete Lineage Sorting. PLoS Genetics.. 2(10),
Wang, Q., Prabhakar, S., Wang, Q., Moses, A., Chanan, S., Brown, M., Eisen, M., Cheng, J., Rubin, E., Boffelli, D. (2006).  Primate-Specific Evolution of an LDLR Enhancer.. Genome Biology Aug 2;. 7(8), R68.
Pennacchio, L., Ahituv, N., Moses, A., Prabhakar, A., Nobrega, M., Shoukry, M., Minovitsky, S., Dubchak, I, Holt, A., Lewis, K. (2006).  In Vivo Enhancer Analysis of Human Conserved Noncoding Sequences. Nature. Nov 23;. 444(7118), 499-502. Abstract
Gasch, A., Moses, A., Chiang, D., Fraser, H., Berardini, M., Eisen, M. (2004).  Conservation and Evolution of Cis-Regulatory Systems in Ascomycete Fungi. PLoS Biology Nov 9;. 2(12), e398.
Moses, A., Chiang, D., Pollard, D., Iyer, V., Eisen, M. (2004).  MONKEY: identifying conserved transcription-factor binding sites in multiple alignments using a binding sitespecific evolutionary model. Genome Biology. 5(12), R98.
Moses, A., Chiang, D., Eisen, M. (2004).  Phylogenetic Motif Detection by Expectation Maximization on Evolutionary Mixtures. Pacific Symposium on Biocomputing.
Moses, A., Chiang, D., Kellis, M., Lander, E., Eisen, M. (2003).  Position specific variation in the rate of evolution in transcription factor binding sites. BMC Evolutionary Biology. 3(19),
Chiang, D., Moses, A., Kellis, M., Lander, E., Eisen, M. (2003).  Phylogenetically and spatially conserved word pairs associated with gene-expression changes in yeasts.. Genome Biology. 4(7), R43.