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<title>Michael O. Duff</title>

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<h4>Michael O. Duff</h4>

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<a href="https://www.fredhutch.org/en/research/divisions/vaccine-infectious-disease-division/research/biostatistics-bioinformatics-and-epidemiology.html">
Biostatistics, Bioinformatics and Epidemiology Program
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<a href="https://www.fredhutch.org/en/research/divisions/vaccine-infectious-disease-division.html">
Vaccine and Infectious Disease Division
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<a href="https://www.fredhutch.org/en.html">
Fred Hutchinson Cancer Research Center
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<a href="https://www.thestranger.com/">
Seattle WA
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<a href="mailto:moduff@fredhutch.org">moduff@fredhutch.org</a>


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I'm a computational biologist focused on B-cell repertoire dynamics in response
  to infection and vaccination.
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Before joining the Hutch, I worked with Brenton <a
  href="http://graveleylab.cam.uchc.edu/Graveley/index.html">Graveley</a>'s RNA biology / alternative-splicing lab at UConn Health Ctr,
	contributing to the <a href="http://www.modencode.org">modENCODE</a> and
	<a href="https://encodeproject.org">ENCODE</a> projects.
  PhD: UMass Amherst, Computer Science, Reinforcement Learning theory and optimal adaptive control
  (Andy <a href="http://www-all.cs.umass.edu/~barto/">Barto</a>, PI). Postdoctoral fellowships: <a href="https://www.gatsby.ucl.ac.uk/">Gatsby</a> Computational Neuroscience
  Unit, University College London, and the Institute for Genomics and
	Bioinformatics, <a href="https://www.igb.uci.edu/">UC Irvine</a>.

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<a href="selected_publications.html">
Selected publications</a>


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<h5>Computational Biology</h5>

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Van Nostrand, E.L., et al (2020) <a href="https://www.nature.com/articles/s41586-020-2077-3">A Large-Scale Binding and Functional Map of Human RNA
	Binding Proteins</a>, Nature 583, pp. 711–719, July 29.

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Garren, S., Kondaveeti, Y., Duff, M.O., & Carmichael, G. (2015) <a
href="http://journals.plos.org/plospathogens/article?id=10.1371/journal.ppat.1005166">Global
analysis of mouse polyomavirus infection reveals dynamic regulation of
viral and host gene expression and promiscuous viral RNA
editing</a>. PLOS Pathogens, 11(9), September 25.

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Duff, M.O., Olson, S, Wei, X., Osman, A., Plocik, A., Bolisetty, M. Celniker, S. & Graveley, B.R. (2015) <a href="https://www.nature.com/articles/nature14475">Genome-wide Identification of Zero Nucleotide Recursive Splicing in Drosophila</a>. Nature 521, May 21, 376-9.


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Yang L., Duff M.O., Graveley B.R., Carmichael G.G. and Chen L-L. (2011) <a
href="http://genomebiology.com/2011/12/2/R16">Genomewide
characterization of long nonpolyadenylated RNAs</a>. Genome Biology,
  Feb 16.


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Graveley,B.R, Brooks,A.N.,Carlson,J.W.,Duff,M.O.,Landolin,J.M.,Yang,L., et al (2010). <a href="https://www.nature.com/articles/nature09715">The developmental transcriptome of Drosophila melanogaster</a>. Nature, Dec 22.


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<h5>Reinforcement Learning Theory</h5>

<img src = "mouse-maze.jpg" width="250" height="136">

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Duff, M.O. (2003) <a
href="http://www.aaai.org/Papers/ICML/2003/ICML03-020.pdf">Design for
an optimal probe<a/>. Proceedings of the 20th International Conference
on Machine Learning 131-138.

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Duff, M.O. (2001)<a href="duff_ai_stat_2001.pdf">
Monte-Carlo Algorithms for the Improvement of Finite-State Stochastic Controllers</a>.
Eighth International Workshop on Artificial Intelligence and
Statistics, Key West FL.

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Duff, M.O. (1995)<a
href="Duff_1995_q_learning_bandits.pdf">
Q-learning for bandit problems</a>. Proceedings of the 12th International Conference on Machine Learning, 209-217.

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Duff, M.O. <a href="solving-bellmans-equation-by-solving-method-of-continuity.pdf">Solving Bellman's equation by the method of continuation</a>. Proceedings of the American Control Conference, 1994.: 2671-2682.<br><p>


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