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  1. 1.   MYC assembles and stimulates topoisomerases 1 and 2 in a "topoisome"
  2. Das, Subhendu K.; Kuzin, Vladislav; Cameron, Donald P.; Sanford, Suzanne; Jha, Rajiv Kumar; Nie, Zuqin; Rosello, Marta Trullols; Holewinski,Ronald; Andresson,Thorkell; Wisniewski, Jan; Natsume, Toyoaki; Price, David H.; Lewis, Brian A.; Kouzine, Fedor; Levens, David; Baranello, Laura
  3. Molecular Cell. 2022, Jan 6; 82(1): 140-158. e12.
  1. 2.   Toward best practice in cancer mutation detection with whole-genome and whole-exome sequencing
  2. Xiao, Wenming; Ren, Luyao; Chen, Zhong; Fang, Li Tai; Zhao,Yongmei; Lack,Justin; Guan, Meijian; Zhu, Bin; Jaeger, Erich; Kerrigan, Liz; Blomquist, Thomas M.; Hung, Tiffany; Sultan, Marc; Idler, Kenneth; Lu, Charles; Scherer, Andreas; Kusko, Rebecca; Moos, Malcolm; Xiao, Chunlin; Sherry, Stephen T.; Abaan, Ogan D.; Chen, Wanqiu; Chen, Xin; Nordlund, Jessica; Liljedahl, Ulrika; Maestro, Roberta; Polano, Maurizio; Drabek, Jiri; Vojta, Petr; Koks, Sulev; Reimann, Ene; Madala, Bindu Swapna; Mercer, Timothy; Miller, Chris; Jacob, Howard; Truong, Tiffany; Moshrefi, Ali; Natarajan, Aparna; Granat, Ana; Schroth, Gary P.; Kalamegham, Rasika; Peters, Eric; Petitjean, Virginie; Walton,Ashley; Shen,Tsai-Wei; Talsania,Keyur; Vera, Cristobal Juan; Langenbach, Kurt; de Mars, Maryellen; Hipp, Jennifer A.; Willey, James C.; Wang, Jing; Shetty,Jyoti; Kriga,Yuliya; Raziuddin,Arati; Tran,Bao; Zheng, Yuanting; Yu, Ying; Cam, Margaret; Jailwala, Parthav; Meerzaman, Daoud; Chen, Qingrong; Yan, Chunhua; Ernest, Ben; Mehra, Urvashi; Jensen, Roderick; Jones, Wendell; Li, Jian-Liang; Papas, Brian N.; Pirooznia, Mehdi; Chen, Yun-Ching; Seifuddin, Fayaz; Li, Zhipan; Liu, Xuelu; Resch, Wolfgang; Wang, Jingya; Wu, Leihong; Yavas, Gokhan; Miles, Corey; Ning, Baitang; Tong, Weida; Mason, Christopher E.; Donaldson, Eric; Lababidi, Samir; Staudt, Louis M.; Tezak, Zivana; Hong, Huixiao; Wang, Charles; Shi, Leming
  3. Nature Biotechnology. 2021, Sep; 39(9): 1141-1150.
  1. 3.   Proteogenomic insights into the biology and treatment of HPV-negative head and neck squamous cell carcinoma
  2. Huang, Chen; Chen, Lijun; Savage, Sara R.; Eguez, Rodrigo Vargas; Dou, Yongchao; Li, Yize; Leprevost, Felipe da Veiga; Jaehnig, Eric J.; Lei, Jonathan T.; Wen, Bo; Schnaubelt, Michael; Krug, Karsten; Song, Xiaoyu; Cieslik, Marcin; Chang, Hui-Yin; Wyczalkowski, Matthew A.; Li, Kai; Colaprico, Antonio; Li, Qing Kay; Clark, David J.; Hu, Yingwei; Cao, Liwei; Pan, Jianbo; Wang, Yuefan; Cho, Kyung-Cho; Shi, Zhiao; Liao, Yuxing; Jiang, Wen; Anurag, Meenakshi; Ji, Jiayi; Yoo, Seungyeul; Zhou, Daniel Cui; Liang, Wen-Wei; Wendl, Michael; Vats, Pankaj; Carr, Steven A.; Mani, D. R.; Zhang, Zhen; Qian, Jiang; Chen, Xi S.; Pico, Alexander R.; Wang, Pei; Chinnaiyan, Arul M.; Ketchum, Karen A.; Kinsinger, Christopher R.; Robles, Ana; An, Eunkyung; Hiltke, Tara; Mesri, Mehdi; Thiagarajan,Mathangi; Weaver, Alissa M.; Sikora, Andrew G.; Lubinski, Jan; Wierzbicka, Malgorzata; Wiznerowicz, Maciej; Satpathy, Shankha; Gillette, Michael A.; Miles, George; Ellis, Matthew J.; Omenn, Gilbert S.; Rodriguez, Henry; Boja, Emily S.; Dhanasekaran, Saravana M.; Ding, Li; Nesvizhskii, Alexey; El-Naggar, Adel K.; Chan, Daniel W.; Zhang, Hui; Zhang, Bing
  3. Cancer Cell. 2021, Mar 8; 39(3): 361-379.
  1. 4.   A YAP/FOXM1 axis mediates EMT-associated EGFR inhibitor resistance and increased expression of spindle assembly checkpoint components
  2. Nilsson, Monique B.; Sun, Huiying; Robichaux, Jacqulyne; Pfeifer, Matthias; McDermott, Ultan; Travers, Jon; Diao, Lixia; Xi, Yuanxin; Tong, Pan; Shen, Li; Hofstad, Mia; Kawakami, Masanori; Le, Xiuning; Liu, Xi; Fan, Youhong; Poteete, Alissa; Hu, Limei; Negrao, Marcelo; Tran, Hai; Dmitrovsky, Ethan; Peng, David; Gibbons, Don L.; Wang, Jing; Heymach, John
  3. SCIENCE TRANSLATIONAL MEDICINE. 2020, SEP 2; 12(559): pii: aaz4589.
  1. 5.   Distinct viral reservoirs in individuals with spontaneous control of HIV-1
  2. Jiang, Chenyang; Lian, Xiaodong; Gao, Ce; Sun, Xiaoming; Einkauf, Kevin B; Chevalier, Joshua M; Chen, Samantha M Y; Hua, Stephane; Rhee, Ben; Chang, Kaylee; Blackmer, Jane E; Osborn, Matthew; Peluso, Michael J; Hoh, Rebecca; Somsouk, Ma; Milush, Jeffrey; Bertagnolli, Lynn N; Sweet, Sarah E; Varriale, Joseph A; Burbelo, Peter D; Chun, Tae-Wook; Laird, Gregory M; Serrao, Erik; Engelman, Alan N; Carrington,Mary; Siliciano, Robert F; Siliciano, Janet M; Deeks, Steven G; Walker, Bruce D; Lichterfeld, Mathias; Yu, Xu G
  3. Nature. 2020, Aug 26;
  1. 6.   HIV Rebound Is Predominantly Fueled by Genetically Identical Viral Expansions from Diverse Reservoirs
  2. De Scheerder, Marie-Angélique; Vrancken, Bram; Dellicour, Simon; Schlub, Timothy; Lee, Eunok; Shao,Wei; Rutsaert, Sofie; Verhofstede, Chris; Kerre, Tessa; Malfait, Thomas; Hemelsoet, Dimitri; Coppens, Marc; Dhondt, Annemieke; De Looze, Danny; Vermassen, Frank; Lemey, Philippe; Palmer, Sarah; Vandekerckhove, Linos
  3. Cell host & microbe. 2019, SEP 11; 26(3): 347-+.
  1. 7.   Considerations for an In Vitro, Cell-Based Testing Platform for Detection of Drug-Induced Inotropic Effects in Early Drug Development. Part 2: Designing and Fabricating Microsystems for Assaying Cardiac Contractility With Physiological Relevance Using Human iPSC-Cardiomyocytes
  2. Ribeiro, Alexandre J. S.; Guth, Brian D.; Engwall, Michael; Eldridge, Sandy; Foley, C. Michael; Guo,Liang; Gintant, Gary; Koerner, John; Parish, Stanley T.; Pierson, Jennifer B.; Brock, Mathew; Chaudhary, Khuram W.; Kanda, Yasunari; Berridge, Brian
  3. FRONTIERS IN PHARMACOLOGY. 2019, AUG 29; 10: 934.
  1. 8.   Laboratory mice born to wild mice have natural microbiota and model human immune responses
  2. Rosshart, Stephan P.; Herz, Jasmin; Vassallo, Brian G.; Hunter, Ashli; Wall, Morgan K.; Badger, Jonathan H.; McCulloch, John A.; Anastasakis, Dimitrios G.; Sarshad, Aishe A.; Leonardi, Irina; Collins, Nicholas; Blatter, Joshua A.; Han, Seong-Ji; Tamoutounour, Samira; Potapova, Svetlana; St Claire, Mark B. Foster; Yuan,Wuxing; Sen,Shurjo; Dreier, Matthew S.; Hild, Benedikt; Hafner, Markus; Wang, David; Iliev, Iliyan D.; Belkaid, Yasmine; Trinchieri, Giorgio; Rehermann, Barbara
  3. SCIENCE. 2019, AUG 2; 365(6452): 461-+.
  1. 9.   Proteogenomic Analysis of Human Colon Cancer Reveals New Therapeutic Opportunities
  2. Vasaikar, Suhas; Huang, Chen; Wang, Xiaojing; Petyuk, Vladislav A.; Savage, Sara R.; Wen, Bo; Dou, Yongchao; Zhang, Yun; Shi, Zhiao; Arshad, Osama A.; Gritsenko, Marina A.; Zimmerman, Lisa J.; McDermott, Jason E.; Clauss, Therese R.; Moore, Ronald J.; Zhao, Rui; Monroe, Matthew E.; Wang, Yi-Ting; Chambers, Matthew C.; Slebos, Robbert J. C.; Lau, Ken S.; Mo, Qianxing; Ding, Li; Ellis, Matthew; Thiagarajan,Mathangi; Kinsinger, Christopher R.; Rodriguez, Henry; Smith, Richard D.; Rodland, Karin D.; Liebler, Daniel C.; Liu, Tao; Zhang, Bing; Ellis, Matthew J. C.; Bavarva, Jasmin; Borucki, Melissa; Elburn, Kimberly; Hannick, Linda; Vatanian, Negin; Payne, Samuel H.; Carr, Steven A.; Clauser, Karl R.; Gillette, Michael A.; Kuhn, Eric; Mani, D. R.; Cai, Shuang; Ketchum, Karen A.; Thangudu, Ratna R.; Whiteley, Gordon A.; Paulovich, Amanda; Whiteaker, Jeff; Edward, Nathan J.; Madhavan, Subha; McGarvey, Peter B.; Chan, Daniel W.; Shih, Ie-Ming; Zhang, Hui; Zhang, Zhen; Zhu, Heng; Skates, Steven J.; White, Forest M.; Mertins, Philip; Pandey, Akhilesh; Slebos, Robert J. C.; Boja, Emily; Hiltke, Tara; Kinsinger, Christopher R.; Mesri, Mehdi; Rivers, Robert C.; Stein, Stephen E.; Fenyo, David; Ruggles, Kelly; Levine, Douglas A.; Oberti, Mauricio; Rudnick, Paul A.; Snyder, Michael; Tabb, David L.; Zhao, Yingming; Chen, Xian; Ransohoff, David F.; Hoofnagle, Andrew; Sanders, Melinda E.; Wang, Yue; Davies, Sherri R.; Townsend, R. Reid; Watson, Mark
  3. CELL. 2019, May 2; 177(4): 1035-1049.e19.
  1. 10.   QuagmiR: a cloud-based application for isomiR big data analytics
  2. Bofill De Ros,Xavier; Chen, Kevin; Chen, Susanna; Tesic, Nikola; Randjelovic, Dusan; Skundric, Nikola; Nesic, Svetozar; Varjacic, Vojislav; Williams, Elizabeth H.; Malhotra, Raunaq; Jiang, Minjie; Gu,Shuo
  3. BIOINFORMATICS. 2019, MAY 1; 35(9): 1576-1578.
  1. 11.   Phylogenetic inference for the study of within-host HIV-1 dynamics and persistence on antiretroviral therapy
  2. Capoferri, Adam A.; Bale,Michael; Simonetti, Francesco R.; Kearney,Mary
  3. The lancet. HIV. 2019, May; 6(5): E325-E333.
  1. 12.   Adaptive evolution of the matrix extracellular phosphoglycoprotein in mammals
  2. Machado, J. P.; Johnson, W. E.; O'Brien, S. J.; Vasconcelos, V.; Antunes, A.
  3. Bmc Evolutionary Biology. 2011, Nov; 11
  1. 13.   Protein structure prediction using a docking-based hierarchical folding scheme
  2. Kifer, I.; Nussinov, R.; Wolfson, H. J.
  3. Proteins-Structure Function and Bioinformatics. 2011, Jun; 79(6): 1759-1773.
  1. 14.   Insight into the Salivary Transcriptome and Proteome of Dipetalogaster maxima
  2. Assumpcao, T. C. F.; Charneau, S.; Santiago, P. B. M.; Francischetti, I. M. B.; Meng, Z. J.; Araujo, C. N.; Pham, V.; Queiroz, R. M. L.; de Castro, C. N.; Ricart, C. A.; Santana, J. M.; Ribeiro, J. M. C.
  3. Journal of Proteome Research. 2011, Feb; 10(2): 669-679.
  1. 15.   Next-generation sequencing for HLA typing of class I loci
  2. Erlich, R. L.; Jia, X. M.; Anderson, S.; Banks, E.; Gao, X. J.; Carrington, M.; Gupta, N.; DePristo, M. A.; Henn, M. R.; Lennon, N. J.; de Bakker, P. I. W.
  3. Bmc Genomics. 2011, Jan; 12: 13.
  1. 16.   Molecular Evolutionary Analysis of ABCB5: The Ancestral Gene Is a Full Transporter with Potentially Deleterious Single Nucleotide Polymorphisms
  2. Moitra, K.; Scally, M.; McGee, K.; Lancaster, G.; Gold, B.; Dean, M.
  3. Plos One. 2011, Jan; 6(1): 12.
  1. 17.   Interleukin-26: An IL-10-related cytokine produced by Th17 cells
  2. Donnelly, R. P.; Sheikh, F.; Dickensheets, H.; Savan, R.; Young, H. A.; Walter, M. R.
  3. Cytokine & Growth Factor Reviews. 2010, Oct; 21(5): 393-401.
  1. 18.   Molecular evolution and the role of oxidative stress in the expansion and functional diversification of cytosolic glutathione transferases
  2. da Fonseca, R. R.; Johnson, W. E.; O'Brien, S. J.; Vasconcelos, V.; Antunes, A.
  3. Bmc Evolutionary Biology. 2010, Sep; 10: 11.
  1. 19.   Low Frequency Nonnucleoside Reverse-Transcriptase Inhibitor-Resistant Variants Contribute to Failure of Efavirenz-Containing Regimens in Treatment-Experienced Patients
  2. Halvas, E. K.; Wiegand, A.; Boltz, V. F.; Kearney, M.; Nissley, D.; Wantman, M.; Hammer, S. M.; Palmer, S.; Vaida, F.; Coffin, J. M.; Mellors, J. W.
  3. Journal of Infectious Diseases. 2010, Mar; 201(5): 672-680.
  1. 20.   Feline immunodeficiency virus (FIV) in wild Pallas' cats
  2. Brown, M. A.; Munkhtsog, B.; Troyer, J. L.; Ross, S.; Sellers, R.; Fine, A. E.; Swanson, W. F.; Roelke, M. E.; O'Brien, S. J.
  3. Veterinary Immunology and Immunopathology. 2010, Mar; 134(1-2): 90-95.
  1. 21.   Overproduction, purification and structure determination of human dual-specificity phosphatase 14
  2. Lountos, G. T.; Tropea, J. E.; Cherry, S.; Waugh, D. S.
  3. Acta crystallographica. Section D, Biological crystallography. 2009, Oct; 65(Pt 10): 1013-20.
  1. 22.   Bioconjugation and detection of lactosamine moiety using alpha1,3-galactosyltransferase mutants that transfer C2-modified galactose with a chemical handle
  2. Pasek, M.; Ramakrishnan, B.; Boeggeman, E.; Manzoni, M.; Waybright, T. J.; Qasba, P. K.
  3. Bioconjugate Chemistry. 2009, Mar 18; 20(3): 608-18.
  1. 23.   A Novel System of Polymorphic and Diverse NK Cell Receptors in Primates
  2. Averdam, A.; Petersen, B.; Rosner, C.; Neff, J.; Roos, C.; Eberle, M.; Aujard, F.; Munich, C.; Schempp, W.; Carrington, M.; Shiina, T.; Inoko, H.; Knaust, F.; Coggill, P.; Sehra, H.; Beck, S.; Abi-Rached, L.; Reinhardt, R.; Walter, L.
  3. Plos Genetics. 2009 5(10):
  1. 24.   Genetics and Pathogenesis of Feline Infectious Peritonitis Virus
  2. Brown, M. A.; Troyer, J. L.; Pecon-Slattery, J.; Roelke, M. E.; O'Brien, S. J.
  3. Emerging Infectious Diseases. 2009 15(9): 1445-1452.
  1. 25.   Genome and gene alterations by insertions and deletions in the evolution of human and chimpanzee chromosome 22
  2. Volfovsky, N.; Oleksyk, T. K.; Cruz, K. C.; Truelove, A. L.; Stephens, R. M.; Smith, M. W.
  3. Bmc Genomics. 2009 10 AR 51
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