Publications

(Lab members underlined)

2018  Castro JPL*, Yancoskie MN*, Marchini M, Belohlavy S, Kucka MBeluch WH, Naumann R, Barton NH, Rolian C†, Chan YF†. An integrative genomic analysis of the Longshanks selection experiment for longer limbs in mice. In review at eLIFE. * co-first authors; † co-last authors; Also on bioRxiv, doi: 10.1101/378711.

2018  Thompson AC, Capellini TD, Guenther CA, Chan YF, Infante CR, Menke DB, Kingsley DM. A novel enhancer near the Pitx1 gene influences development and evolution of pelvic appendages in vertebrates. eLIFE 2018;7:e38555.

2018  Lazzarano SKucka MCastro JPL, Naumann R, Medina PFletcher MNCWombacher R, Gribnau J, Hochepied T, Van Montagu M, Libert C, Chan, YF. Genetic mapping of species differences via “in vitro crosses” in mouse embryonic stem cells. PNAS  doi: 10.1073/pnas.1717474115.

2017  Ullate-Agote A, Chan YF, Tzika AC. A step-by-step guide to assemble a reptilian genome. Chapter in Methods in Molecular Biology - Avian and Reptilian Developmental Biology. Guojun Sheng (ed.). Springer, New York.

2017  Bay RA, Arnegard ME, Conte GL, Best J, Bedford NL, McCann SR, Dubin ME, Chan YF, Jones FC, Kingsley DM, Schluter D, Peichel CL. Genetic coupling of female mate choice with polygenic ecological divergence facilitates stickleback speciation. Current Biology27 (21):3344-3349.

2015  Conte GL, Arnegard ME, Best J, Chan YF, Jones FC, Kingsley DM, Schluter D, Peichel CL. The extent of parallel genetic evolution underlying parallel phenotypic evolution in threespine stickleback species pairs. Genetics. 201:1189-1200.

2014  Arnegard ME, McGee MD, Matthews BW, Marchinko KB, Conte GL, Kabir S, Bedford N, Bergek S, Chan YF*, Jones FC, Kingsley DM, Peichel CL, Schluter D Nature (Article). 511 (7509): 307-311.

2012  Jones FC*, Grabherr MG*, Chan YF*, Russell P*, Mauceli E., Johnson J, Pirun M, Zody MC, White S, Birney E, Searle S, Schmutz J, Grimwood J, Dickson MC, Myers RM, Miller CT, Summers BR, Knecht AK, Brady SD, Zhang H, Pollen AA, Howes T, Amemiya C, Broad Institute Genome Sequencing Platform and Whole Genome Assembly Team, Lander ES, Di Palma F, Lindblad-Toh K, Kingsley DM. The genomic basis of adaptive evolution in threespine sticklebacks. Nature (Article). 484 (7392): 55-61. (* co-first authorship)


  • Featured in Nature

2012 • Chan YF, Jones FC, McConnell E, Bryk J, Bünger L, Tautz D. Parallel selection mapping using artificially selected mice reveals bodyweight control genes. Current Biology. 22 (9): 794-800.

  • Featured in Current BiologyNature Review Genetics

2012  Wark AR, Mills MG, Dang L-H, Chan YF, Jones FC, Brady SD, Absher DM, Grimwood J, Schmutz J, Myers RM, Kingsley DM, Peichel CL. Genetic architecture of variation in the lateral line sensory system of threespine sticklebacks. G3: Genes, Genomes, Genetics. 2 (9): 1047-1056.

2011  Deagle, BE, Jones FC, Chan YF, Absher DM, Kingsley DM, Reimchen TE. Population genomics of parallel phenotypic evolution in stream–lake stickleback. Proceedings of the Royal Society B. 279 (1732): 1277-1286.

2011  Jones FC, Chan YF, Schmutz J, Grimwood J, Brady SD, Southwick AM, Absher DM, Myers RM, Reimchen TE, Deagle BE, Schluter D, Kingsley DM. A genome-wide genotyping array reveals patterns of global and repeated species pair divergence in sticklebacks. Current Biology. 22 (1): 83-90.

2011  Greenwood AK, Jones FC, Chan YF, Brady SD, Absher DM, Grimwood J, Schmutz J, Myers RM, Kingsley DM, Peichel CL. The genetic basis of cryptic pigment patterns in juvenile threespine sticklebacks. Heredity. 107: 155-166.

2010  Chan YF, Marks ME, Jones FC, Villarreal G Jr., Shapiro MD, Brady SD, Southwick AM, Absher DM, Grimwood J, Schmutz J, Myers RM, Petrov DA, Jónsson B, Schluter D, Bell MA, Kingsley DM. Adaptive evolution of pelvic reduction in sticklebacks by recurrent deletion of a Pitx1 enhancer. Science(Article) 327 (5963): 302-305.

  • Featured in ScienceNature
  • Section highlight in Developmental Biology, 9th Ed (p. 686) by S. Gilbert
  • Featured in NPR Science Friday & New York Times Science
  • Selected by Faculty of 1000 (FFa – 10; Must Read), Nature Journal Club

2009 • Kitano J, Ross JA, Mori S, Kume M, Jones FC, Chan YF, Absher DM, Grimwood J, Schmutz J, Myers RM, Kingsley DM, Peichel CL. A role for neo-sex chromosomes in stickleback speciation. Nature (Article) 461 (7267): 1079-1083.

Commentary or News and Views

2012  Chan YF. Parallel evolution: hearing echoes. Heredity 108: 471-472. (News & Commentary)

2012  Chan YF. A personal primer for modern biology. Trends in Ecology and Evolution. DOI: 10.1016/j.tree.2012.07.012. (Book review)