

Yun S. Song
Associate Professor
Research Areas
Biography
Yun S. Song is an associate professor in EECS and Statistics. He received the BS degrees in mathematics and physics from MIT, and a PhD in physics from Stanford University. After his PhD, he spent a year at the Mathematical Institute at the University of Oxford, where he decided to change fields. He became a postdoctoral researcher in the Department of Statistics at Oxford, and started doing research in computational biology and mathematical population genetics. From 2004 to 2007, he was a postdoctoral researcher at UC Davis in the Department of Computer Science, and the Section of Evolution and Ecology.
Recent honors and awards include an NIH Pathway to Independence Award K99/R00 (2006), an Alfred P. Sloan Research Fellowship (2008), a Packard Fellowship for Science and Engineering (2008), an NSF CAREER Award (2009), and Jim and Donna Gray Faculty Award for Excellence in Undergraduate Teaching (2013).
Selected Publications
 M. Steinrücken, A. Bhaskar, and Y. S. Song, "A novel spectral method for inferring general selection from time series genetic data," Annals of Applied Statistics, 2014.
 A. Bhaskar and Y. S. Song, "Descartes' rule of signs and the identifiability of population demographic models from genomic variation data," Annals of Statistics, vol. 42, no. 6, pp. 24692493, Dec. 2014.
 A. Bhaskar, A. G. Clark, and Y. S. Song, "Distortion of genealogical properties when the sample is very large," PNAS, vol. 111, no. 6, pp. 23852390, Feb. 2014.
 A. Bhaskar, J. A. Kamm, and Y. S. Song, "Approximate sampling formulae for general finitealleles models of mutation," Advances in Applied Probability, vol. 44, no. 2, pp. 408428, 2012.
 A. Bhaskar and Y. S. Song, "Closedform asymptotic sampling distributions under the coalescent with recombination for an arbitrary number of loci," Advances in Applied Probability, vol. 44, no. 2, pp. 391407, 2012.
 P. A. Jenkins and Y. S. Song, "Padé approximants and exact twolocus sampling distributions," Annals of Applied Probability, vol. 22, no. 2, pp. 576607, 2012.
 J. Paul and Y. S. Song, "Blockwise HMM computation for largescale population genomic inference," Bioinformatics, vol. 28, no. 15, pp. 20082015, Aug. 2012.
 Y. S. Song and M. Steinrücken, "A simple method for finding explicit analytic transition densities of diffusion processes with general diploid selection," Genetics, vol. 190, no. 3, pp. 11171129, March 2012.
 W. Kao, A. Chan, and Y. S. Song, "ECHO: A referencefree shortread error correction algorithm," Genome Research, vol. 21, pp. 11811192, July 2011.
 R. Nielsen, J. Paul, A. Albrechtsen, and Y. S. Song, "Genotype and SNP calling from nextgeneration sequencing data," Nature Reviews Genetics, vol. 12, pp. 443451, June 2011.
 J. S. Paul, M. Steinrücken, and Y. S. Song, "An accurate sequentially Markov conditional sampling distribution for the coalescent with recombination," Genetics, vol. 187, pp. 11151128, April 2011.
 P. A. Jenkins and Y. S. Song, "An asymptotic sampling formula for the coalescent with recombination," Annals of Applied Probability, vol. 20, no. 3, pp. 10051028, June 2010.
 W. C. Kao, K. Stevens, and Y. S. Song, "BayesCall: A modelbased basecalling algorithm for highthroughput shortread sequencing," Genome Research, vol. 19, no. 10, pp. 18841895, Oct. 2009.
 J. Li and Y. S. Song, "Open string instantons and relative stable morphisms (Invited Reprint)," in The Interaction of FiniteType and GromovWitten Invariants (BIRS 2003), D. Auckly and J. Bryan, Eds., Geometry and Topology Monographs, Vol. 8, Berkeley, CA: Mathematical Sciences Publishers, 2006, pp. 4972.
 S. Monni, J. S. Song, and Y. S. Song, "The Hurwitz enumeration problem of branched covers and Hodge integrals," J. Geometry and Physics, vol. 50, no. 14, pp. 223256, April 2004.



