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  1. 1.   Proteogenomic characterization of pancreatic ductal adenocarcinoma
  2. Cao, Liwei; Huang, Chen; Zhou, Daniel Cui; Hu, Yingwei; Lih, T. Mamie; Savage, Sara R.; Krug, Karsten; Clark, David J.; Schnaubelt, Michael; Chen, Lijun; Leprevost, Felipe da Veiga; Eguez, Rodrigo Vargas; Yang, Weiming; Pan, Jianbo; Wen, Bo; Dou, Yongchao; Jiang, Wen; Liao, Yuxing; Shi, Zhiao; Terekhanova, Nadezhda; Cao, Song; Lu, Rita Jui-Hsien; Li, Yize; Liu, Ruiyang; Zhu, Houxiang; Ronning, Peter; Wu, Yige; Wyczalkowski, Matthew A.; Easwaran, Hariharan; Danilova, Ludmila; Mer, Arvind Singh; Yoo, Seungyeul; Wang, Joshua M.; Liu, Wenke; Haibe-Kains, Benjamin; Thiagarajan,Mathangi; Jewell, Scott D.; Hostetter, Galen; Newton, Chelsea J.; Li, Qing Kay; Roehr, Michael H.; Fenyo, David; Wang, Pei; Nesvizhskii, Alexey; Mani, D. R.; Omenn, Gilbert S.; Boja, Emily S.; Mesri, Mehdi; Robles, Ana; Rodriguez, Henry; Bathe, Oliver F.; Chan, Daniel W.; Hruban, Ralph H.; Ding, Li; Zhang, Bing; Zhang, Hui
  3. Cell. 2021, Sep 16; 184(19): 5031-5052.e26.
  1. 2.   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. 3.   Deep Proteomics Using Two Dimensional Data Independent Acquisition Mass Spectrometry
  2. Cho, Kyung-Cho; Clark, David J.; Schnaubelt, Michael; Teo, Guo Ci; Leprevost, Felipe Veiga; Bocik,William; Boja, Emily S.; Hiltke, Tara; Nesvizhskii, Alexey; Zhang, Hui
  3. ANALYTICAL CHEMISTRY. 2020, Mar 17; 92(6): 4217-4225.
  1. 4.   Sequence signatures and mRNA concentration can explain two-thirds of protein abundance variation in a human cell line
  2. Vogel, C.; Abreu, R. D.; Ko, D. J.; Le, S. Y.; Shapiro, B. A.; Burns, S. C.; Sandhu, D.; Boutz, D. R.; Marcotte, E. M.; Penalva, L. O.
  3. Molecular Systems Biology. 2010, Aug; 6: 9.
  1. 5.   Genomic Analyses of Musashi1 Downstream Targets Show a Strong Association with Cancer-related Processes
  2. Abreu, R. D.; Sanchez-Diaz, P. C.; Vogel, C.; Burns, S. C.; Ko, D. J.; Burton, T. L.; Vo, D. T.; Chennasamudaram, S.; Le, S. Y.; Shapiro, B. A.; Penalva, L.
  3. Journal of Biological Chemistry. 2009 284(18): 12125-12135.
  1. 6.   Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists
  2. Huang, D. W.; Sherman, B. T.; Lempicki, R. A.
  3. Nucleic Acids Research. 2009 37(1): 1-13.
  1. 7.   Phylogeography and population history of the crab-eating fox (Cerdocyon thous)
  2. Tchaicka, L.; Eizirik, E.; De Oliveira, T. G.; Candido, J. F.; Freitas, T. R. O.
  3. Molecular Ecology. 2007, Feb; 16(4): 819-838.
  1. 8.   Transcriptomic analysis of an in vitro murine model of ovarian carcinoma: Functional similarity to the human disease and identification of prospective tumoral markers and targets
  2. Urzua, U.; Roby, K. F.; Gangi, L. M.; Cherry, J. M.; Powell, J. I.; Munroe, D. J.
  3. Journal of Cellular Physiology. 2006, MAR; 206(3): 594-602.
  1. 9.   Comprehensive analysis of pathway or functionally related gene expression in the National Cancer Institute's anticancer screen
  2. Huang, R.; Wallqvist, A.; Covell, D. G.
  3. Genomics. 2006, MAR; 87(3): 315-328.
  1. 10.   LC-MS in metabonomics: Optimization of experimental conditions for the analysis of metabolites in human urine
  2. Waybright, T. J.; Van, Q. N.; Muschik, G. M.; Conrads, T. P.; Veenstra, T. D.; Issaq, H. J.
  3. Journal of Liquid Chromatography & Related Technologies. 2006 29(17): 2475-2497.
  1. 11.   Genetic variation, nucleotide diversity, and linkage disequilibrium in seven telomere stability genes suggest that these genes may be under constraint
  2. Savage, S. A.; Stewart, B. J.; Eckert, A.; Kiley, M.; Liao, J. S.; Chanock, S. J.
  3. Human Mutation. 2005, OCT; 26(4): 343-350.
  1. 12.   Comparison of the genomic structure and variation in the two human sodium-dependent vitamin C transporters, SLC23A1 and SLC23A2
  2. Eck, P.; Erichsen, H. C.; Taylor, J. G.; Yeager, M.; Hughes, A. L.; Levine, M.; Chanock, S. J.
  3. Human Genetics. 2004, SEP; 115(4): 285-294.
  1. 13.   Association of strong virus-specific CD4 T cell responses with efficient natural control of primary HIV-1 infection
  2. Gloster, S. E.; Newton, P.; Cornforth, D.; Lifson, J. D.; Williams, I.; Shaw, G. M.; Borrow, P.
  3. Aids. 2004 18(5): 749-755.
  1. 14.   Microarray analysis of altered gene expression in the TM4 Sertoli-like cell line exposed to chromium(III) chloride
  2. Cheng, R. Y. S.; Alvord, W. G.; Powell, D.; Kasprzak, K. S.; Anderson, L. M.
  3. Reproductive Toxicology. 2002 16(3): 223-236.
  1. 15.   Interdomain interactions in hinge-bending transitions
  2. Sinha, N.; Kumar, S.; Nussinov, R.
  3. Structure. 2001 9(12): 1165-1181.
  1. 16.   Salt bridge stability in monomeric proteins
  2. Kumar, S.; Nussinov, R.
  3. Journal of Molecular Biology. 1999 293(5): 1241-1255.
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