Allele-specific copy number analysis of tumors von Van Loo, Peter, Nordgard, Silje H., Lingjærde, Ole Christian, Russnes, Hege G., Rye, Inga H., Sun, Wei, Weigman, Victor J., Marynen, Peter, Zetterberg, Anders, Naume, Bjørn, Perou, Charles M., Børresen-Dale, Anne-Lise, Kristensen, Vessela N.

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Identification of conserved gene expression features between murine mammary carcinoma models and human breast tumors von Herschkowitz, Jason I, Simin, Karl, Weigman, Victor J, Mikaelian, Igor, Usary, Jerry, Hu, Zhiyuan, Rasmussen, Karen E, Jones, Laundette P, Assefnia, Shahin, Chandrasekharan, Subhashini, Backlund, Michael G, Yin, Yuzhi, Khramtsov, Andrey I, Bastein, Roy, Quackenbush, John, Glazer, Robert I, Brown, Powel H, Green, Jeffrey E, Kopelovich, Levy, Furth, Priscilla A, Palazzo, Juan P, Olopade, Olufunmilayo I, Bernard, Philip S, Churchill, Gary A, Van Dyke, Terry, Perou, Charles M

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Rb deletion in mouse mammary progenitors induces luminal-B or basal-like/EMT tumor subtypes depending on p53 status von Jiang, Zhe, Deng, Tao, Jones, Robert, Li, Huiqin, Herschkowitz, Jason I, Liu, Jeff C, Weigman, Victor J, Tsao, Ming-Sound, Lane, Timothy F, Perou, Charles M, Zacksenhaus, Eldad

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EGFR associated expression profiles vary with breast tumor subtype von Hoadley, Katherine A, Weigman, Victor J, Fan, Cheng, Sawyer, Lynda R, He, Xiaping, Troester, Melissa A, Sartor, Carolyn I, Rieger-House, Thais, Bernard, Philip S, Carey, Lisa A, Perou, Charles M

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Efficient and accurate whole genome assembly and methylome profiling of E. coli von Powers, Jason G, Weigman, Victor J, Shu, Jenny, Pufky, John M, Cox, Donald, Hurban, Patrick

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Deep sequencing of gastric carcinoma reveals somatic mutations relevant to personalized medicine von Holbrook, Joanna D, Parker, Joel S, Gallagher, Kathleen T, Halsey, Wendy S, Hughes, Ashley M, Weigman, Victor J, Lebowitz, Peter F, Kumar, Rakesh

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Gene expression signatures from three genetically separable resistance gene signaling pathways for downy mildew resistance von Eulgem, T, Weigman, V.J, Chang, H.S, McDowell, J.M, Holub, E.B, Glazebrook, J, Zhu, T, Dangl, J.L

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Basal-like Breast cancer DNA copy number losses identify genes involved in genomic instability, response to therapy, and patient survival von Weigman, Victor J., Chao, Hann-Hsiang, Shabalin, Andrey A., He, Xiaping, Parker, Joel S., Nordgard, Silje H., Grushko, Tatyana, Huo, Dezheng, Nwachukwu, Chika, Nobel, Andrew, Kristensen, Vessela N., Børresen-Dale, Anne-Lise, Olopade, Olufunmilayo I., Perou, Charles M.

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Finding Large Average Submatrices in High Dimensional Data von Shabalin, Andrey A., Weigman, Victor J., Perou, Charles M., Nobel, Andrew B.

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HIF2α cooperates with RAS to promote lung tumorigenesis in mice von Kim, William Y, Perera, Samanthi, Zhou, Bing, Carretero, Julian, Yeh, Jen Jen, Heathcote, Samuel A, Jackson, Autumn L, Nikolinakos, Petros, Ospina, Beatriz, Naumov, George, Brandstetter, Kathleyn A, Weigman, Victor J, Zaghlul, Sara, Hayes, D. Neil, Padera, Robert F, Heymach, John V, Kung, Andrew L, Sharpless, Norman E, Kaelin, Jr., William G

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TMB standardization by alignment to reference standards: Phase II of the Friends of Cancer Research TMB Harmonization Project von Merino, Diana M., McShane, Lisa, Butler, Matt, Funari, Vincent Anthony, Hellmann, Matthew David, Chaudhary, Ruchi, Chen, Shu-Jen, Chen, Wangjuh Sting, Conroy, Jeffrey M., Fabrizio, David, MacConaill, Laura E, Pallavajjala, Aparna, Papin, Arnaud, Sausen, Mark, Weigman, Victor J, Xie, Mingchao, Zehir, Ahmet, Zhao, Chen, Williams, Paul M.

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Abstract 4496: Genomic profiling of late stage tumors powering precision medicine in Japan von Kanai, Masashi, Schu, Matthew, Sakuma, Tomohiro, Abbott, Steven, Kou, Tadayuki, Gagnon, Ross, Halsey, Thomas, Matsumoto, Shigemi, Kamada, Mayumi, Nakatsui, Masahiko, Okuno, Yasushi, Hiroshima, Akinori, Mochizuki, Hiroaki, Hurban, Patrick, Muto, Manabu, Weigman, Victor J.

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Abstract LB-381: Effects of sequencing parameters and panel size on mutational burden calculations von Yourstone, Scott, Mola, Natalie, Weigman, Victor J.

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Abstract LB-380: TMB calling in absence of matched normal: Learning germline behavior von Tian, Yiqing, Jones, Wendell, Mola, Natalie, Weigman, Victor J.

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Abstract 2296: STAR-SEQR: Accurate fusion detection and support for fusion neoantigen applications von Jasper, Jeff, Powers, Jason G., Weigman, Victor J.

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Abstract 2250: Tumor mutational burden: Guidelines for derivation and robustness of measurement von Mola, Natalie, Schu, Matthew, Stiegelmeyer, Suzy, Jones, Wendell, Weigman, Victor J.

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Abstract 1346: Panel-based tumor mutational burden (TMB) analysis of matched tumor and plasma specimens using Illumina’s TruSight Oncology 500 next-generation sequencing assay von Hastings, Stephanie B., Hariani, Gunjan, Weigman, Victor J., Jiang, Tingting, Zhao, Chen, Raja, Rajiv, Pawlowski, Traci, Brohawn, Philip, Hurban, Patrick

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Abstract 5276: Impact of duplicate removal on low frequency NGS somatic variant calling von Stratford, Jeran, Hariani, Gunjan, Jasper, Jeff, Brown, Chad, Jones, Wendell, Weigman, Victor J.

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Abstract 5671: Alignment of TMB measured on clinical samples: Phase IIB of the Friends of Cancer Research TMB Harmonization Project von MERINO, Diana M., Yee, Laura M., McShane, Lisa M., Williams, P. Mickey, Vilimas, Tomas, Patidar, Rajesh, Barrett, J. Carl, Chen, Shu-Jen, Cheng, Jen-Hao, Conroy, Jeffrey M., Cyanam, Dinesh, Eyring, Kenneth R., Fabrizio, David A., Funari, Vincent, Garcia, Elizabeth P., Glenn, Sean T., Gocke, Christopher D., Gupta, Vikas, Haley, Lisa M., Hellmann, Matthew D., Keefer, Laurel, Keeler, Lauryn R., Kennedy, Brett, Lazar, Alexander J., MacConaill, Laura E., Meier, Kristen L., Papin, Arnaud, Rizvi, Naiyer A., Sokol, Ethan, Stafford, Phillip, Thompson, John F., Tom, Warren, Weigman, Victor J., Xie, Mingchao, Zhao, Chen, Stewart, Mark D., Allen, Jeff

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Abstract 5933: Trimodal molecular analysis in single cells of a primary breast cancer cohort with ResolveOME ™ amplification von Zawistowski, Jon S., Salas-Gonzalez, Isai, Tate, Tia A., Morozova, Tatiana V., Kennedy, Katherine, Arvapalli, Durga M., Velivela, Swetha D., Remington, Jamie E., Croteau, Josh, Taylor, Kevin, Blackinton, Jeff G., Weigman, Victor J., Marks, Jeffrey R., Hwang, Eun-Sil Shelley, Harton, Gary L., West, Jay A.

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