Student Publications

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Zhu X, Hart R, Chang M S, et al. "Analysis of the major patterns of B cell gene expression changes in response to short-term stimulation with 33 single ligands." J. Immunol.. 2004;173(12):7141-9.
Zhou D, Udpa N, Gersten M, et al. "Experimental selection of hypoxia-tolerant Drosophila melanogaster." Proc. Natl. Acad. Sci. U.S.A.. 2011;108(6):2349-54.
Zhou D, Udpa N, Ronen R, et al. "Whole-genome sequencing uncovers the genetic basis of chronic mountain sickness in Andean highlanders." Am. J. Hum. Genet.. 2013;93(3):452-62.
Zhi D, Krishna SS, Cao H, Pevzner P, Godzik A. "Representing and comparing protein structures as paths in three-dimensional space." BMC Bioinformatics. 2006;7:460.
Zhi D, Keich U, Pevzner P, Heber S, Tang H. "Correcting base-assignment errors in repeat regions of shotgun assembly." IEEE/ACM Trans Comput Biol Bioinform. 2007;4(1):54-64.
Zhi D, Raphael BJ, Price AL, Tang H, Pevzner PA. "Identifying repeat domains in large genomes." Genome Biol.. 2006;7(1):R7.
Zheng M, Barrera LO, Ren B, Wu Y. "ChIP-chip: data, model, and analysis." Biometrics. 2007;63(3):787-96.
Zhang H, Liu AY, Loriaux P, et al. "Mass spectrometric detection of tissue proteins in plasma." Mol. Cell Proteomics. 2007;6(1):64-71.
Zhang L, Rao F, Zhang K, et al. "Discovery of common human genetic variants of GTP cyclohydrolase 1 (GCH1) governing nitric oxide, autonomic activity, and cardiovascular risk." J. Clin. Invest.. 2007;117(9):2658-71.
Zhang H, Loriaux P, Eng J, et al. "UniPep--a database for human N-linked glycosites: a resource for biomarker discovery." Genome Biol.. 2006;7(8):R73.
Zaitlen N, Kang H M, Eskin E, Halperin E. "Leveraging the HapMap correlation structure in association studies." Am. J. Hum. Genet.. 2007;80(4):683-91.
Zaitlen NA, Kang H M, Feolo ML, Sherry ST, Halperin E, Eskin E. "Inference and analysis of haplotypes from combined genotyping studies deposited in dbSNP." Genome Res.. 2005;15(11):1594-600.
Yurkovich JT, Palsson BO. "Solving Puzzles With Missing Pieces: The Power of Systems Biology." Proceedings of the IEEE. 2016;104(1):2-7.
Young JA, Johnson JR, Benner C, et al. "In silico discovery of transcription regulatory elements in Plasmodium falciparum." BMC Genomics. 2008;9:70.
Yost SE, Smith EN, Schwab RB, et al. "Identification of high-confidence somatic mutations in whole genome sequence of formalin-fixed breast cancer specimens." Nucleic Acids Res.. 2012;40(14):e107.
Yeung M, Thiele I, Palsson BO. "Estimation of the number of extreme pathways for metabolic networks." BMC Bioinformatics. 2007;8(1):363.
Ye C, Eskin E. "Discovering tightly regulated and differentially expressed gene sets in whole genome expression data." Bioinformatics. 2007;23(2):e84-90.
Yang S, Valas R, Bourne PE. "Evolution Studied Using Protein Structure." In: Gu J, Bourne P, eds. Structural Bioinformatics (Methods of Biochemical Analysis), pp. 559-571. 2nd ed. Hoboken, N.J.: Wiley & Sons, Inc.; 2009.
Yamaguchi S, Hong K, Liu R, et al. "Tet1 controls meiosis by regulating meiotic gene expression." Nature. 2012;492(7429):443-7.
Xu X, Nagarajan H, Lewis NE, et al. "The genomic sequence of the Chinese hamster ovary (CHO)-K1 cell line." Nat. Biotechnol.. 2011;29(8):735-41.
Xie W, Schultz MD, Lister R, et al. "Epigenomic analysis of multilineage differentiation of human embryonic stem cells." Cell. 2013;153(5):1134-48.
Xie L, Wang J, Bourne PE. "In silico elucidation of the molecular mechanism defining the adverse effect of selective estrogen receptor modulators." PLoS Comput. Biol.. 2007;3(11):e217.