Publications


  • Xue AT, Schrider DR, Kern AD, Ag1000G Consortium. 2021. Discovery of ongoing selective sweeps within Anopheles mosquito populations using deep learning. Molecular Biology and Evolution. 38(3) 1168-1183.
  • Bertola LD, Boehm JT, Putman NF, Xue AT, Robinson JD, Harris S, Baldwin CC, Overcast I, Hickerson MJ. 2020. Asymmetrical gene-flow in five co-distributed syngnathids explained by ocean currents and rafting propensity. Proceedings of the Royal Society B: Biological Sciences. 287(1926) 20200657.
  • Xue AT, Hickerson MJ. 2020. Comparative phylogeographic inference with genome-wide data from aggregated population-pairs. Evolution. 74(5) 808-830.
  • Thom G, Xue AT, Sawakuchi AO, Ribas CC, Hickerson MJ, Aleixo A, Miyaki C. 2020. Quaternary climate changes as speciation drivers in the Amazon Floodplains. Science Advances. 6(11), eaax4718.
  • Myers EA, Xue AT, Gehara M, Cox CL, Davis Rabosky AR, Lemos-Espinal J, Martínez-Gómez JE, Burbrink FT. 2019. Environmental heterogeneity and not vicariant biogeographic barriers generate community-wide population structure in desert-adapted snakes. Molecular Ecology. 28(20), 4535-4548.
  • Xue AT, Ruggiero RP, Hickerson MJ, Boissinot S. 2018. Differential effect of selection against LINE retrotransposons among vertebrates inferred from whole-genome data and demographic modeling. Genome Biology and Evolution. 10(5), 1265-1281.
  • Potter S, Xue AT, Bragg JG, Rosauer DF, Roycroft EJ, Moritz C. 2018. Pleistocene climatic changes drive diversification across a tropical savanna. Molecular Ecology. 27(2), 520-532.
  • Mastretta-Yanes A, Xue AT, Moreno-Letelier A, Jorgensen TH, Alvarez N, Piñero D, Emerson BC. 2018. Long-term in situ persistence of biodiversity in tropical sky-islands revealed by landscape genomics. Molecular Ecology. 27(2), 432-448.
  • Xue AT, Hickerson MJ. 2017. Multi-DICE: R package for comparative population genomic inference under hierarchical co-demographic models of independent single-population size changes. Molecular Ecology Resources. 17(6), e212-e224.
  • Prates I, Xue AT, Brown JL, Alvarado-Serrano DF, Rodrigues MT, Hickerson MJ, Carnaval AC. 2016. Inferring responses to climate dynamics from historical demography in neotropical forest lizards. Proceedings of the National Academy of Sciences. 113(29), 7978-7985.
  • Harris SE, Xue AT, Alvarado-Serrano D, Boehm JT, Joseph T, Hickerson MJ, Munshi-South J. 2016. Urbanization shapes the demographic history of a native rodent (the white-footed mouse, Peromyscus leucopus) in New York City. Biology Letters. 12(4), 20150983.
  • Xue AT, Hickerson MJ. 2015. The aggregate site frequency spectrum for comparative population genomic inference. Molecular Ecology. 24(24), 6223-6240.

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Invited Presentations


  • Xue AT. 2019. Comparative population genomic inference of demography and selection. Keynote Speaker at Mexico Population Genomics Meeting.
  • Xue AT. 2018. Comparative population genomic inference: detecting partial selective sweeps with deep learning and hierarchical co-demographic modeling. Seminar at Cold Spring Harbor Laboratory.
  • Xue AT. 2018. Comparative population genomic inference: hierarchical co-demographic models and detecting partial selective sweeps. Seminar at Temple University.
  • Xue AT. 2016. Comparative phylogeographic and population genomic inference under hierarchical models. Seminar at Harvard University.
  • Xue AT, Hickerson MJ. 2015. Novel method for next-generation comparative phylogeography and population genomics. Atlantic Forest Dimensions of Biodiversity Meeting.
  • Xue AT. 2014. What can we do with our personal genomic data? National Genographic and American Museum of Natural History New York City Student Ancestry Event.

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Contributed Presentations


  • Xue AT, Huang YF, Siepel A. 2021. ASSESS: Estimating a complex trait’s genome-wide distribution of selection coefficients and effect sizes from GWAS summary statistics under a likelihood model. Cold Spring Harbor Laboratory Simons Center for Quantitative Biology Bioinformatics and Computational Biology Seminar.
  • Xue AT, Huang YF, Siepel A. 2020. Likelihood model that uses GWAS summary statistics to estimate strength of polygenic selection underlying a complex trait. New York Area Population Genomics Workshop.
  • Xue AT, Huang YF, Siepel A. 2019. Estimating distribution of fitness effects (DFE) from GWAS statistics within a likelihood framework. The Biology of Genomes Meeting. (Poster)
  • Xue AT, Schrider DR, Kern AD. 2018. Probing the genomic signatures of insecticide resistance in the malaria vector Anopheles gambiae via deep learning. GSA Population, Evolutionary, and Quantitative Genetics Conference. (Poster)
  • ​Xue AT, Hickerson MJ. 2016. Comparative phylogeographic and population genomic inference under hierarchical multi-taxa co-divergence models. Evolution Meeting.
  • Xue AT, Hickerson MJ. 2015. Novel method for next-generation comparative phylogeography and population genomics. Evolution Meeting.
  • Xue AT, Hickerson MJ. 2015. New method for demographic inference of comparative population genomic data. New York Area Population Genomics Workshop.

  • Xue AT, Hickerson MJ. 2014. The multi-species allele frequency spectrum (msAFS) for next-generation comparative phylogeography. Evolution Meeting.
  • Xue AT, Hickerson MJ. 2014. Using the multi-species allele frequency spectrum (AFS) for community-level demographic inference. International Biogeography Society Early Career Conference.
  • Xue AT, Hickerson MJ. 2013. Detecting melting pots and hotspots among Australian communities. Software and Statistical Methods for Population Genetics. (Poster)​

Copyright © Alexander T. Xue. All rights reserved.

Xander Xue

Simons Center for Quantitative Biology

Cold Spring Harbor Laboratory

One Bungtown Road

Cold Spring Harbor, NY 11724

xanderxue at gmail dot com

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