A machine learning algorithm with subclonal sensitivity reveals widespread pan-cancer human leukocyte antigen loss of heterozygosity von Pyke, Rachel Marty, Mellacheruvu, Dattatreya, Dea, Steven, Abbott, Charles W., McDaniel, Lee, Bhave, Devayani P., Zhang, Simo V., Levy, Eric, Bartha, Gabor, West, John, Snyder, Michael P., Chen, Richard O., Boyle, Sean Michael

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Evolutionary superscaffolding and chromosome anchoring to improve Anopheles genome assemblies von Waterhouse, Robert M, Aganezov, Sergey, Anselmetti, Yoann, Lee, Jiyoung, Ruzzante, Livio, Reijnders, Maarten J M F, Feron, Romain, Bérard, Sèverine, George, Phillip, Hahn, Matthew W, Howell, Paul I, Kamali, Maryam, Koren, Sergey, Lawson, Daniel, Maslen, Gareth, Peery, Ashley, Phillippy, Adam M, Sharakhova, Maria V, Tannier, Eric, Unger, Maria F, Zhang, Simo V, Alekseyev, Max A, Besansky, Nora J, Chauve, Cedric, Emrich, Scott J, Sharakhov, Igor V

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Intraspecific Genetic Variation Underlying Postmating Reproductive Barriers between Species in the Wild Tomato Clade (Solanum sect. Lycopersicon) von Jewell, Cathleen P, Zhang, Simo V, Gibson, Matthew J S, Tovar-Méndez, Alejandro, McClure, Bruce, Moyle, Leonie C

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The sequencing and interpretation of the genome obtained from a Serbian individual von Mohammed Ismail, Wazim, Pagel, Kymberleigh A, Pejaver, Vikas, Zhang, Simo V, Casasa, Sofia, Mort, Matthew, Cooper, David N, Hahn, Matthew W, Radivojac, Predrag

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Prediction of Immunotherapy Response in Melanoma through Combined Modeling of Neoantigen Burden and Immune-Related Resistance Mechanisms von Abbott, Charles W, Boyle, Sean M, Pyke, Rachel Marty, McDaniel, Lee D, Levy, Eric, Navarro, Fábio C P, Mellacheruvu, Dattatreya, Zhang, Simo V, Tan, Mengyao, Santiago, Rose, Rusan, Zeid M, Milani, Pamela, Bartha, Gabor, Harris, Jason, McClory, Rena, Snyder, Michael P, Jang, Sekwon, Chen, Richard

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Precision Neoantigen Discovery Using Large-scale Immunopeptidomes and Composite Modeling of MHC Peptide Presentation von Pyke, Rachel Marty, Mellacheruvu, Dattatreya, Dea, Steven, Abbott, Charles W., Zhang, Simo V., Phillips, Nick A., Harris, Jason, Bartha, Gabor, Desai, Sejal, McClory, Rena, West, John, Snyder, Michael P., Chen, Richard, Boyle, Sean Michael

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Precision Neoantigen Discovery Using Large-Scale Immunopeptidomes and Composite Modeling of MHC Peptide Presentation von Pyke, Rachel Marty, Mellacheruvu, Datta, Dea, Steven, Abbott, Charles, Zhang, Simo V., Phillips, Nick A., Harris, Jason, Bartha, Gabor, Desai, Sejal, McClory, Rena, West, John, Snyder, Michael P., Chen, Richard, Boyle, Sean Michael

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Rearrangement of macronucleus chromosomes correspond to TAD-like structures of micronucleus chromosomes in Tetrahymena thermophila von Luo, Zhengyu, Hu, Tengfei, Jiang, Hong, Wang, Ruoyu, Xu, Qianlan, Zhang, Simo, Cao, Jun, Song, Xiaoyuan

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Withdrawal of ‘Precision Neoantigen Discovery Using Large-scale Immunopeptidomes and Composite Modeling of MHC Peptide Presentation’ von Pyke, Rachel Marty, Mellacheruvu, Dattatreya, Dea, Steven, Abbott, Charles W., Zhang, Simo V., Phillips, Nick A., Harris, Jason, Bartha, Gabor, Desai, Sejal, McClory, Rena, West, John, Snyder, Michael P., Chen, Richard, Boyle, Sean Michael

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Radical remodeling of the Y chromosome in a recent radiation of malaria mosquitoes von Hall, Andrew Brantley, Papathanos, Philippos-Aris, Sharma, Atashi, Cheng, Changde, Akbari, Omar S., Assour, Lauren, Bergman, Nicholas H., Cagnetti, Alessia, Crisanti, Andrea, Dottorini, Tania, Fiorentini, Elisa, Galizi, Roberto, Hnath, Jonathan, Jiang, Xiaofang, Koren, Sergey, Nolan, Tony, Radune, Diane, Sharakhova, Maria V., Steele, Aaron, Timoshevskiy, Vladimir A., Windbichler, Nikolai, Zhang, Simo, Hahn, Matthew W., Phillippy, Adam M., Emrich, Scott J., Sharakhov, Igor V., Tu, Zhijian Jake, Besansky, Nora J.

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AGOUTI: improving genome assembly and annotation using transcriptome data von Zhang, Simo V, Zhuo, Luting, Hahn, Matthew W

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A map of human cancer signaling von Cui, Qinghua, Ma, Yun, Jaramillo, Maria, Bari, Hamza, Awan, Arif, Yang, Song, Zhang, Simo, Liu, Lixue, Lu, Meng, O'Connor‐McCourt, Maureen, Purisima, Enrico O, Wang, Edwin

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Sequencing, Assembling, and Correcting Draft Genomes Using Recombinant Populations von Hahn, Matthew W, Zhang, Simo V, Moyle, Leonie C

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79 Extensively validated HLA LOH algorithm demonstrates an association between HLA LOH and genomic instability von Pyke, Rachel, Dea, Steven, Mellacheruvu, Dattatreya, Abbott, Charles, Zhang, Simo, McDaniel, Lee, Levy, Eric, Bartha, Gabor, West, John, Snyder, Michael, Chen, Richard, Boyle, Sean

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73 Orthogonally and functionally validated algorithm for detecting HLA loss of heterozygosity von Pyke, Rachel, Mellacheruvu, Dattatreya, Abbott, Charles, Levy, Eric, Zhang, Simo, Bhave, Devayani, Chinnappa, Manjula, Bartha, Gabor, Lyle, John, West, John, Chen, Richard, Boyle, Sean

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29 Profiling tumor circulating cell-free DNA with an enhanced whole-exome to enable sensitive assessment of somatic mutations von Zhang, Simo, Tan, Mengyao, Navarro, Fabio CP, Northcott, Josette, Ma, Shuyuan, Nelson, Christopher, Bhave, Devayani, Gordon Bentley, L, Chinnappa, Manju, Norton, Dan, Bartha, Gabor, Harris, Jason, Lyle, John, Boyle, Sean, West, John, Chen, Richard

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A novel cross‐coupled filter with triangular resonators von Zhang, Simo, Huang, Zhengwei, Cheng, Yong

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Effect of Heterogeneous Deformation on Microstructure and Microtexture Evolution of Ti‐6Al‐4V Alloy during Multidirectional Isothermal Forging von Zhang, Simo, Huang, Wenhao, Yu, Jiajun, Zhang, Zhixiong, Zhang, Juntao, Yuan, Ruilin, Zhang, Changjiang, Han, Jianchao, Meng, Jianan, Wang, Tao

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1×3 optical switch with a V-shaped microchannel von Wan, Jing, Miao, Jiangyun, Xu, Peng, Zhang, Simo, Duan, Yixin

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Association mapping desiccation resistance within chromosomal inversions in the African malaria vector Anopheles gambiae von Ayala, Diego, Zhang, Simo, Chateau, Mathieu, Fouet, Caroline, Morlais, Isabelle, Costantini, Carlo, Hahn, Matthew W., Besansky, Nora J.

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