The Prevalence and Impact of Model Violations in Phylogenetic Analysis von Naser-Khdour, Suha, Minh, Bui Quang, Zhang, Wenqi, Stone, Eric A, Lanfear, Robert

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The genetics of quantitative traits: challenges and prospects von Mackay, Trudy F. C, Stone, Eric A, Ayroles, Julien F

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Using whole-genome sequence data to predict quantitative trait phenotypes in Drosophila melanogaster von Ober, Ulrike, Ayroles, Julien F, Stone, Eric A, Richards, Stephen, Zhu, Dianhui, Gibbs, Richard A, Stricker, Christian, Gianola, Daniel, Schlather, Martin, Mackay, Trudy F C, Simianer, Henner

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Physicochemical constraint violation by missense substitutions mediates impairment of protein function and disease severity von Stone, Eric A, Sidow, Arend

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Distribution and intensity of constraint in mammalian genomic sequence von Cooper, Gregory M, Stone, Eric A, Asimenos, George, Green, Eric D, Batzoglou, Serafim, Sidow, Arend

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Genome-wide analysis in Drosophila reveals age-specific effects of SNPs on fitness traits von Durham, Mary F., Magwire, Michael M., Stone, Eric A., Leips, Jeff

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Physical separation of haplotypes in dikaryons allows benchmarking of phasing accuracy in Nanopore and HiFi assemblies with Hi-C data von Duan, Hongyu, Jones, Ashley W, Hewitt, Tim, Mackenzie, Amy, Hu, Yiheng, Sharp, Anna, Lewis, David, Mago, Rohit, Upadhyaya, Narayana M, Rathjen, John P, Stone, Eric A, Schwessinger, Benjamin, Figueroa, Melania, Dodds, Peter N, Periyannan, Sambasivam, Sperschneider, Jana

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Genetic basis of transcriptome diversity in Drosophila melanogaster von Huang, Wen, Carbone, Mary Anna, Magwire, Michael M, Peiffer, Jason A, Lyman, Richard F, Stone, Eric A, Anholt, Robert R H, Mackay, Trudy F C

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Modulated modularity clustering as an exploratory tool for functional genomic inference von Stone, Eric A, Ayroles, Julien F

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Epistasis dominates the genetic architecture of Drosophila quantitative traits von Huang, Wen, Richards, Stephen, Carbone, Mary Anna, Zhu, Dianhui, Anholt, Robert R. H, Ayroles, Julien F, Duncan, Laura, Jordan, Katherine W, Lawrence, Faye, Magwire, Michael M, Warner, Crystal B, Blankenburg, Kerstin, Han, Yi, Javaid, Mehwish, Jayaseelan, Joy, Jhangiani, Shalini N, Muzny, Donna, Ongeri, Fiona, Perales, Lora, Wu, Yuan-Qing, Zhang, Yiqing, Zou, Xiaoyan, Stone, Eric A, Gibbs, Richard A, Mackay, Trudy F. C

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Phenotypic plasticity of the Drosophila transcriptome von Zhou, Shanshan, Campbell, Terry G, Stone, Eric A, Mackay, Trudy F C, Anholt, Robert R H

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Effect of sexual recombination on population diversity in aflatoxin production by Aspergillus flavus and evidence for cryptic heterokaryosis von OLARTE, RODRIGO A., HORN, BRUCE W., DORNER, JOE W., MONACELL, JAMES T., SINGH, RAKHI, STONE, ERIC A., CARBONE, IGNAZIO

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Genomic variation and its impact on gene expression in Drosophila melanogaster von Massouras, Andreas, Waszak, Sebastian M, Albarca-Aguilera, Monica, Hens, Korneel, Holcombe, Wiebke, Ayroles, Julien F, Dermitzakis, Emmanouil T, Stone, Eric A, Jensen, Jeffrey D, Mackay, Trudy F C, Deplancke, Bart

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The stem rust fungus Puccinia graminis f. sp. tritici induces centromeric small RNAs during late infection that are associated with genome-wide DNA methylation von Sperschneider, Jana, Jones, Ashley W., Nasim, Jamila, Xu, Bo, Jacques, Silke, Zhong, Chengcheng, Upadhyaya, Narayana M., Mago, Rohit, Hu, Yiheng, Figueroa, Melania, Singh, Karam B., Stone, Eric A., Schwessinger, Benjamin, Wang, Ming-Bo, Taylor, Jennifer M., Dodds, Peter N.

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A population genetic approach to mapping neurological disorder genes using deep resequencing von Myers, Rachel A, Casals, Ferran, Gauthier, Julie, Hamdan, Fadi F, Keebler, Jon, Boyko, Adam R, Bustamante, Carlos D, Piton, Amelie M, Spiegelman, Dan, Henrion, Edouard, Zilversmit, Martine, Hussin, Julie, Quinlan, Jacklyn, Yang, Yan, Lafrenière, Ronald G, Griffing, Alexander R, Stone, Eric A, Rouleau, Guy A, Awadalla, Philip

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Inferring Species Compositions of Complex Fungal Communities from Long- and Short-Read Sequence Data von Hu, Yiheng, Irinyi, Laszlo, Hoang, Minh Thuy Vi, Eenjes, Tavish, Graetz, Abigail, Stone, Eric A, Meyer, Wieland, Schwessinger, Benjamin, Rathjen, John P

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A final common pathway for depression? Progress toward a general conceptual framework von Stone, Eric A., Lin, Yan, Quartermain, David

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Sexuality generates diversity in the aflatoxin gene cluster: evidence on a global scale von Moore, Geromy G, Elliott, Jacalyn L, Singh, Rakhi, Horn, Bruce W, Dorner, Joe W, Stone, Eric A, Chulze, Sofia N, Barros, German G, Naik, Manjunath K, Wright, Graeme C, Hell, Kerstin, Carbone, Ignazio

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Plasticity of the chemoreceptor repertoire in Drosophila melanogaster von Zhou, Shanshan, Stone, Eric A, Mackay, Trudy F C, Anholt, Robert R H

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No evidence for a global male-specific lethal complex-mediated dosage compensation contribution to the demasculinization of the Drosophila melanogaster X chromosome von Vensko, 2nd, Steven P, Stone, Eric A

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