Harbison, Susan T, Mary Anna Carbone, Julien Ayroles, Eric A Stone, Richard F Lyman, and Trudy F C Mackay. (2009) 2009. “Co-Regulated Transcriptional Networks Contribute to Natural Genetic Variation in Drosophila Sleep.”. Nat Genet 41 (3): 371-5.

Morozova, Tatiana, V, Julien Ayroles, Katherine W Jordan, Laura Duncan, Mary Anna Carbone, Richard F Lyman, Eric A Stone, et al. (2009) 2009. “Alcohol Sensitivity in Drosophila: Translational Potential of Systems Genetics.”. Genetics 183 (2): 733-45, 1SI.

Kim, Hye In, Johannes Raffler, Wenyun Lu, Jung-Jin Lee, Deepti Abbey, Danish Saleheen, Joshua D Rabinowitz, et al. (2017) 2017. “Fine Mapping and Functional Analysis Reveal a Role of SLC22A1 in Acylcarnitine Transport.”. Am J Hum Genet 101 (4): 489-502. doi:10.1016/j.ajhg.2017.08.008.

Krishnan, Arjun, Ran Zhang, Victoria Yao, Chandra L Theesfeld, Aaron K Wong, Alicja Tadych, Natalia Volfovsky, Alan Packer, Alex Lash, and Olga G Troyanskaya. (2016) 2016. “Genome-Wide Prediction and Functional Characterization of the Genetic Basis of Autism Spectrum Disorder.”. Nat Neurosci 19 (11): 1454-62. doi:10.1038/nn.4353.

Rangan, Aaditya, V, Caroline C McGrouther, John Kelsoe, Nicholas Schork, Eli Stahl, Qian Zhu, Arjun Krishnan, et al. (2018) 2018. “A Loop-Counting Method for Covariate-Corrected Low-Rank Biclustering of Gene-Expression and Genome-Wide Association Study Data.”. PLoS Comput Biol 14 (5): e1006105. doi:10.1371/journal.pcbi.1006105.

Zhou, Jian, Chandra L Theesfeld, Kevin Yao, Kathleen M Chen, Aaron K Wong, and Olga G Troyanskaya. (2018) 2018. “Deep Learning Sequence-Based Ab Initio Prediction of Variant Effects on Expression and Disease Risk.”. Nat Genet 50 (8): 1171-79. doi:10.1038/s41588-018-0160-6.

Zhou, Jian, Ignacio E Schor, Victoria Yao, Chandra L Theesfeld, Raquel Marco-Ferreres, Alicja Tadych, Eileen E M Furlong, and Olga G Troyanskaya. (2019) 2019. “Accurate Genome-Wide Predictions of Spatio-Temporal Gene Expression During Embryonic Development.”. PLoS Genet 15 (9): e1008382. doi:10.1371/journal.pgen.1008382.

Jumbo-Lucioni, Patricia, Julien Ayroles, Michelle Chambers, Katherine W Jordan, Jeff Leips, Trudy Fc Mackay, and Maria De Luca. 2010. “Systems Genetics Analysis of Body Weight and Energy Metabolism Traits in Drosophila Melanogaster.”. BMC Genomics 11: 297.

Baryshnikova, Anastasia, Michael Costanzo, Yungil Kim, Huiming Ding, Judice Koh, Kiana Toufighi, Ji-Young Youn, et al. (2010) 2010. “Quantitative Analysis of Fitness and Genetic Interactions in Yeast on a Genome Scale.”. Nat Methods 7 (12): 1017-24.

Markowetz, Florian, Klaas W Mulder, Edoardo M Airoldi, Ihor R Lemischka, and Olga G Troyanskaya. 2010. “Mapping Dynamic Histone Acetylation Patterns to Gene Expression in Nanog-Depleted Murine Embryonic Stem Cells.”. PLoS Comput Biol 6 (12): e1001034.

Schacherer, Joseph, Douglas M Ruderfer, David Gresham, Kara Dolinski, David Botstein, and Leonid Kruglyak. 2007. “Genome-Wide Analysis of Nucleotide-Level Variation in Commonly Used Saccharomyces Cerevisiae Strains.”. PLoS One 2 (3): e322.

Guan, Yuanfang, Cheryl L Ackert-Bicknell, Braden Kell, Olga G Troyanskaya, and Matthew A Hibbs. 2010. “Functional Genomics Complements Quantitative Genetics in Identifying Disease-Gene Associations.”. PLoS Comput Biol 6 (11): e1000991.

Mackay, Trudy F C, Stephen Richards, Eric A Stone, Antonio Barbadilla, Julien Ayroles, Dianhui Zhu, Sònia Casillas, et al. (2012) 2012. “The Drosophila Melanogaster Genetic Reference Panel.”. Nature 482 (7384): 173-8.