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Earley, E. J., & Jones, C. D. (2011). Next-Generation Mapping of Complex Traits with Phenotype-Based Selection and Introgression. Genetics, 189(4), 1203-1209. doi:10.1534/genetics.111.129445

Singh, D., Orellana, C. F., Hu, Y., Jones, C. D., Liu, Y., Chiang, D. Y., . . . Prins, J. F. (2011). FDM: A graph-based statistical method to detect differential transcription using RNA-seq data. Bioinformatics, 27(19), 2633-2640. doi:10.1093/bioinformatics/btr458

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Baltrus DA, Romanchuk A, Nishmura M, Roach J, Jones CD, Dangl JD. Whole genome sequencing of a clade of Pseudomonads reveals complex interplay between effector repertoire and host utilization. PLoS Pathogens [accepted pending minor revision].

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