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Boldrick, Jennifer C, Ash A Alizadeh, Maximilian Diehn, Sandrine Dudoit, Chih Long Liu, Christopher E Belcher, David Botstein, Louis M Staudt, Patrick O Brown, and David A Relman. (2002) 2002. “Stereotyped and Specific Gene Expression Programs in Human Innate Immune Responses to Bacteria.”. Proc Natl Acad Sci U S A 99 (2): 972-7.

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McIsaac, Scott, Sanford J Silverman, Megan N McClean, Patrick A Gibney, Joanna Macinskas, Mark J Hickman, Allegra A Petti, and David Botstein. (2011) 2011. “Fast-Acting and Nearly Gratuitous Induction of Gene Expression and Protein Depletion in Saccharomyces Cerevisiae.”. Mol Biol Cell 22 (22): 4447-59.

Hickman, Mark J, Allegra A Petti, Olivia Ho-Shing, Sanford J Silverman, Scott McIsaac, Traci A Lee, and David Botstein. (2011) 2011. “Coordinated Regulation of Sulfur and Phospholipid Metabolism Reflects the Importance of Methylation in the Growth of Yeast.”. Mol Biol Cell 22 (21): 4192-204.

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Kocher, Sarah D, Julien Ayroles, Eric A Stone, and Christina M Grozinger. 2010. “Individual Variation in Pheromone Response Correlates With Reproductive Traits and Brain Gene Expression in Worker Honey Bees.”. PLoS One 5 (2): e9116.

Jeffrey, Stefanie S, Michael J Fero, Anne-Lise Børresen-Dale, and David Botstein. (2002) 2002. “Expression Array Technology in the Diagnosis and Treatment of Breast Cancer.”. Mol Interv 2 (2): 101-9.

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Myers, Chad L, Xing Chen, and Olga G Troyanskaya. 2005. “Visualization-Based Discovery and Analysis of Genomic Aberrations in Microarray Data.”. BMC Bioinformatics 6: 146.

Tkačik, Gašper, Thomas Gregor, and William Bialek. 2008. “The Role of Input Noise in Transcriptional Regulation.”. PLoS One 3 (7): e2774.

Markowetz, Florian, Dennis Kostka, Olga G Troyanskaya, and Rainer Spang. (2007) 2007. “Nested Effects Models for High-Dimensional Phenotyping Screens.”. Bioinformatics 23 (13).

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Hibbs, Matthew A, Nathaniel C Dirksen, Kai Li, and Olga G Troyanskaya. 2005. “Visualization Methods for Statistical Analysis of Microarray Clusters.”. BMC Bioinformatics 6: 115.

Trinklein, Nathan D, John I Murray, Sara J Hartman, David Botstein, and Richard M Myers. (2004) 2004. “The Role of Heat Shock Transcription Factor 1 in the Genome-Wide Regulation of the Mammalian Heat Shock Response.”. Mol Biol Cell 15 (3): 1254-61.

Huttenhower, Curtis, Avi I Flamholz, Jessica N Landis, Sauhard Sahi, Chad L Myers, Kellen L Olszewski, Matthew A Hibbs, Nathan O Siemers, Olga G Troyanskaya, and Hilary A Coller. 2007. “Nearest Neighbor Networks: Clustering Expression Data Based on Gene Neighborhoods.”. BMC Bioinformatics 8: 250.

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Wyart, Matthieu, David Botstein, and Ned S Wingreen. 2010. “Evaluating Gene Expression Dynamics Using Pairwise RNA FISH Data.”. PLoS Comput Biol 6 (11): e1000979.

Guan, Yuanfang, Maitreya Dunham, Olga G Troyanskaya, and Amy A Caudy. 2013. “Comparative Gene Expression Between Two Yeast Species.”. BMC Genomics 14: 33.

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Gresham, David, Michael M Desai, Cheryl M Tucker, Harry T Jenq, Dave A Pai, Alexandra Ward, Christopher G DeSevo, David Botstein, and Maitreya Dunham. (2008) 2008. “The Repertoire and Dynamics of Evolutionary Adaptations to Controlled Nutrient-Limited Environments in Yeast.”. PLoS Genet 4 (12): e1000303.