Authors whose names are in green are trainees supervised by Sarah. Co-first authorship is denoted by *.

  1. Anderson AP, Flanagan SP, Rose E, Jones AG. 2020. The estrogen-responsive transcriptome of female secondary sexual traits in the Gulf pipefish, Journal of Heredity, esaa008, link to paper
  2. Lerch B, Dautel KA, Brewer S, Liang A, Siewe N, Flanagan SP. 2020. Space, density, and extra-pair matings have opposing impacts on male and female reproductive success. Population Ecology. link to paper
  3. Wright AM, Schwartz RS, Oaks JR, Newman CE, Flanagan SP. The why, when, and how of computing in biology classrooms [version 2; peer review: 2 approved]. F1000Research 2019, 8:1854. link to paper
  4. Flanagan, SP 2019. Quantitative Genetics of Behavior. In: Choe, J.C. (Ed.), Encyclopedia of Animal Behavior, (2nd ed.). vol. 2, pp. 80–93. Elsevier, Academic Press. link to paper, PDF
  5. Flanagan SP, and Jones AG. 2019. The future of parentage analysis: Moving from microsatellites to SNPs and beyond. Molecular Ecology. 28(3): 544-567 doi: 10.1111/mec.14988 link to paper, my summary
  6. Jost L, Archer F, Flanagan SP, Gaggiotti O, Hoban S, Latch E. 2018. Differentiation measures for conservation genetics. Evolutionary Applications. 11: 1139-1148. doi: 10.1111/eva.12590. pdf, link to paper, my summary
  7. Flanagan SP*Forester BR*Latch EKAitken SNHoban S. 2017. Guidelines for planning genomic assessment and monitoring of locally adaptive variation to inform species conservationEvolutionary Applications1110351052. doi: 10.1111/eva.12569. pdf, link to paper, my summary
  8. Flanagan SP, and Jones AG. 2017. Substantial differences in bias between single-digest and double-digest RAD-seq: A case study. Molecular Ecology Resources. 18:264280. doi: 10.1111/1755-0998.12734. link to papermy summary, associated code, gwscaR, data, genomic data
  9. Flanagan SP, and Jones AG. 2017. Constraints on the FST-heterozygosity outlier approach. Journal of Heredity. 108(5): 561-573. doi: 10.1093/jhered/esx048  pdflink to paper, my summary, associated code, data
  10. Flanagan SP, and Jones AG. 2017. Genome-wide selection components analysis in a fish with male pregnancy. Evolution.  71: 1096–1105. DOI: 10.1111/evo.13173 pdflink to paper, my summary, associated code, data, genomic data
  11. Flanagan SP, Rosenqvist G, and Jones AG. 2017. Mate quality and timing of reproduction affects sexual selection in a sex-role-reversed pipefish. Behavioral Ecology and Sociobiology. 71(1): 1-10. doi: 10.1007/s00265-016-2255-3 pdflink to paper, press release, data
  12. Flanagan SP. 2017. Pipefish pairing. Biosphere Magazine. 23. link to article

  13. Flanagan SP, Rose E, and Jones AG. 2016. Population genomics reveals multiple drivers of population differentiation in a sex-role-reversed pipefish. Molecular Ecology. 25(20): 5043-5072. doi: 10.1111/mec.13794 pdflink to paper, my summary, data, genomic data, associated code

  14. Titon SCM, de Assis VR, Titon Jr B, Barsotti AMG, Flanagan SP, and Gomes FR. 2016. Calling rate, corticosterone plasma levels and immunocompetence of Hypsiboas albopunctatus. Comparative Biochemistry and Physiology: Part A. 201: 53-60. link to paper
  15. Rose E, Flanagan SP, and Jones AG. 2015. The effects of synthetic estrogen on the sexually dimorphic liver transcriptome of the sex-role-reversed Gulf pipefish. PLoS One. 10(10): e0139401. pdfmy summary, associated code
  16. Flanagan SP, and Jones AG. 2015. Identifying signatures of sexual selection using genome-wide selection components analysis. Ecology and Evolution. 5(13): 2722-2744. doi: 10.1002/ece3.1546. pdf, my summary, data, associated code
  17. Flanagan SP, Johnson JB, Rose E, and Jones AG. 2014. Sexual selection on female ornaments in the sex-role-reversed Gulf pipefish (Syngnathus scovelli). Journal of Evolutionary Biology. 27 (11): 2457-2467. pdf, data
  18. Flanagan SP, and Bevier CR. 2014. Do male activity and territory quality affect female association time in the Brown Anole, Anolis sagrei? Ethology. 120 (4): 365-374. link to paper
  19. Flanagan SP, Wilson WH, Jones KL, and Lance SL. 2010. Development and characterization of twelve polymorphic microsatellite loci in the Bog Copper, Lycaena epixanthe. Conservation Genetics Resources. 2(1): 159-161. pdf

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