Genome-wide detection and characterization of positive
selection in human populations
Sabeti, Varilly, Fry, Lohmueller, Hostetter, Sotsapos, Xie, Byrne,
et al.
Nature 449:913-918 (2007)
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Geome-wide maps of chromatin state in pluripotent and
lineage-committed cells
Mikkelsen TS, Ku M, et al.
Nature 448:553-60 (2007)
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Systematic discovery of regulatory motifs in conserved regions of the human genome, including thousands of CTCF insulator sites
Xie X, Mikkelsen TS, Gnirke A, Lindblad-Toh K, Kellis M and Lander ES.
Proc Natl Acad Sci USA 104:7145-7150 (2007)
Supplementary website
Supporting Information
News story
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Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences
Mikkelsen TS, Wakefield MJ, et al.
Nature 447:167-177 (2007)
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A family of conserved noncoding elements derived from an ancient transposable element
Xie X, Kamal M, and Lander ES.
Proc Natl Acad Sci USA 103:11659-11664 (2006)
Supplementary website
Supporting Information
News story
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A large family of ancient repeat elements in the human genome is under
strong selection
Kamal M, Xie X, and Lander ES.
Proc Natl Acad Sci USA 103:2740-2745 (2006)
Supplementary
website
Supporting Information
News story
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A Bivalent Chromatin Structure Marks Key Developmental Genes in Embryonic Stem Cells
Bernstein BE, Mikkelsen TS, Xie X, Kamal M et al.
Cell 125:315-26 (2006)
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Comparative sequence analysis reveals an intricate network among REST,
CREB and miRNA in mediating neuronal gene expression
Wu J and Xie X
Genome Biology 7(9):R85 (2006) (Highly accessed)
Supplementary website
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Systematic identification of human mitochondrial disease genes through
integrative genomics
Calvo S, Jain M, Xie X, Chang B, Spinazzola A, Zeviani M, Carr S, and Mootha VK.
Nature Genetics, 38:576-82 (2006)
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Systematic discovery of regulatory motifs in
human promoters and 3' UTRs by comparison of several
mammals
Xie X, Lu J, Kulbokas EJ, Golub TR, Mootha VK, Lindblad-Toh K,
Lander ES, Kellis M.
Nature 2005; 434:338-45
Supplementary Website
Supplementary
Information
News story
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A molecular-properties-based approach to understanding PDZ domain
proteins and PDZ ligands
Giallourakis C, Cao Z, Green T, Wachtel H, Xie X,
Lopez-Illasaca M, Daly M, Rioux J, Xavier R.
Genome Resesarch, 16:1056-72 (2006)
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A Mammalian Organelle Map by Protein Correlation Profiling
Foster LJ, de Hoog CL, Zhang Y, Zhang Y, Xie X, Mootha VK, and Mann M.
Cell 125:187-99 (2006)
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Learning curves for stochastic gradient descent in linear feedforward networks.
Werfel J, Xie X and Seung HS.
Neural Computation, 2005;17:2699-718
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Genome sequence, comparative analysis and haplotype structure of the
domestic dog
Lindblad-Toh K, Wade CM, et al.
Nature 438:803-19 2005
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Disease gene discovery through integrative genomics.
Giallourakis C, Henson C, Reich M, Xie X, and Mootha VK.
Annu. Rev. Genomics Hum. Genet. 2005:22:381-406.
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Learning in neural networks by reinforcement of irregular spiking.
Xie X and Seung HS.
Phys Rev E, 2004;69:041909
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Erralpha and Gabpa/b specify PGC-1alpha-dependent oxidative phosphorylation
gene expression that is altered in diabetic muscle
Mootha VK, Handschin C, Arlow D, Xie X, St Pierre J et al.
Proc Natl Acad Sci USA, 2004;101:6570-5
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The double-ring network modeling of the head-direction system
Xie X, Hahnloser RH, and Seung HS.
Physical Review E, 2002;66:041902
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Nonlinear dynamics of direction-selective recurrent neural media
Xie X and Giese MA.
Physical Review E, 2002;65:051904
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Exact solution of the nonlinear dynamics of recurrent neural mechanisms for direction selectivity
Giese MA and Xie X
Neurocomputing 2002;44:417-422
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Learning winner-take-all competition between groups of neurons in lateral inhibitory
networks
Xie X, Hahnloser HR, and Seung HS.
Advances in Neural Information Processing Systems 2001;13:350-356
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Generating velocity tuning by asymmetric recurrent connections
Xie X and Giese MA.
Advances in Neural Information Processing Systems 2002;13:325-332
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Selectively Grouping Neurons in Recurrent Networks of Lateral Inhibition
Xie X, Hahnloser RH, and Seung HS.
Neural Computation, 2002;14:2627-2646
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Equivalence of backpropagation and contrastive Hebbian learning in a layered network
Xie X and Seung HS.
Neural Computation, 2003;16:441-454
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Threshold behavior of maximum likelihood method in population decoding
Xie X
Network: Comput. Neural Syst. 2002;13:447-456
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Spike-based learning rules and stabilization of persistent neural activity
Xie X and Seung HS
Advances in Neural Information Processing Systems 2000;12:199-205
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