Epernicus: Yi Xing, Ph.D.

Yi Xing, Ph.D.

Position:
Assistant Professor

Internal Medicine

Biomedical Engineering

University of Iowa (Iowa City, IA)
Degrees:

Ph.D., Molecular Biology (Bioinformatics), University of California, Los Angeles (Los Angeles, CA)

B.S., Molecular and Cellular Biology, University of Science and Technology of China (Hefei, China)

B.Eng., Computer Science and Technology, University of Science and Technology of China (Hefei, China)
Past Advisors:

Wing Hung Wong (as Post Doctoral Fellow)

Matthew Scott (as Post Doctoral Fellow)

Christopher Lee (as Graduate Student - Ph.D.)
Research:
Other Experience:
2006-2007 Postdoctoral Fellow, Statistics & Developmental Biology, Stanford University

Communities:

Yi Xing's Genealogy

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Yi Xing's Publications (32)

Large-scale analysis of exonized mammalian-wide interspersed repeats (MIRs) in primate genomes.
Lin L, Jiang P, Shen S, Sato S, Davidson BL, Xing Y

Human molecular genetics. 2009 Mar 26
Nonallele-specific Silencing of Mutant and Wild-type Huntingtin Demonstrates Therapeutic Efficacy in Huntington's Disease Mice.
Boudreau RL, McBride JL, Martins I, Shen S, Xing Y, Carter BJ, Davidson BL

Molecular therapy : the journal of the American Society of Gene Therapy. 2009 Feb 24
Cross-hybridization modeling on Affymetrix exon arrays.
Kapur K, Jiang H, Xing Y, Wong WH

Bioinformatics (Oxford, England). 2008 Dec 15;24(24):2887-93
The bifunctional microRNA miR-9/miR-9* regulates REST and CoREST and is downregulated in Huntington's disease.
Packer AN, Xing Y, Harper SQ, Jones L, Davidson BL

The Journal of neuroscience : the official journal of the Society for Neuroscience. 2008 Dec 31;28(53):14341-6
The effect of intron length on exon creation ratios during the evolution of mammalian genomes.
Roy M, Kim N, Xing Y, Lee C

RNA (New York, N.Y.). 2008 Nov;14(11):2261-73
Isolation and transcriptional profiling of purified hepatic cells derived from human embryonic stem cells.
Chiao E, Elazar M, Xing Y, Xiong A, Kmet M, Millan MT, Glenn JS, Wong WH, Baker J

Stem cells (Dayton, Ohio). 2008 Aug;26(8):2032-41
MADS: a new and improved method for analysis of differential alternative splicing by exon-tiling microarrays.
Xing Y, Stoilov P, Kapur K, Han A, Jiang H, Shen S, Black DL, Wong WH

RNA (New York, N.Y.). 2008 Aug;14(8):1470-9
A transcriptome database for astrocytes, neurons, and oligodendrocytes: a new resource for understanding brain development and function.
Cahoy JD, Emery B, Kaushal A, Foo LC, Zamanian JL, Christopherson KS, Xing Y, Lubischer JL, Krieg PA, Krupenko SA, Thompson WJ, Barres BA

The Journal of neuroscience : the official journal of the Society for Neuroscience. 2008 Jan 2;28(1):264-78
Diverse splicing patterns of exonized Alu elements in human tissues.
Lin L, Shen S, Tye A, Cai JJ, Jiang P, Davidson BL, Xing Y

PLoS genetics. 2008;4(10):e1000225
Reconstruction of full-length isoforms from splice graphs.
Xing Y, Lee C

Methods in molecular biology (Clifton, N.J.). 2008;452:199-205
Solving the problem of Trans-Genomic Query with alignment tables.
Parker DS, Hsiao RL, Xing Y, Resch AM, Lee CJ

IEEE/ACM transactions on computational biology and bioinformatics / IEEE, ACM. 2008 Jul-Sep;5(3):432-47
Global analysis of alternative splicing differences between humans and chimpanzees.
Calarco JA, Xing Y, Cáceres M, Calarco JP, Xiao X, Pan Q, Lee C, Preuss TM, Blencowe BJ

Genes & development. 2007 Nov 15;21(22):2963-75
Depolarization and CaM kinase IV modulate NMDA receptor splicing through two essential RNA elements.
Lee JA, Xing Y, Nguyen D, Xie J, Lee CJ, Black DL

PLoS biology. 2007 Feb;5(2):e40
Exon arrays provide accurate assessments of gene expression.
Kapur K, Xing Y, Ouyang Z, Wong WH

Genome biology. 2007;8(5):R82
Genomic analysis of RNA alternative splicing in cancers.
Xing Y

Frontiers in bioscience : a journal and virtual library. 2007;12:4034-41
Relating alternative splicing to proteome complexity and genome evolution.
Xing Y, Lee C

Advances in experimental medicine and biology. 2007;623:36-49
Alternative splicing and RNA selection pressure--evolutionary consequences for eukaryotic genomes.
Xing Y, Lee C

Nature reviews. Genetics. 2006 Jul;7(7):499-509
Evolutionary divergence of exon flanks: a dissection of mutability and selection.
Xing Y, Wang Q, Lee C

Genetics. 2006 Jul;173(3):1787-91
Can RNA selection pressure distort the measurement of Ka/Ks?
Xing Y, Lee C

Gene. 2006 Mar 29;370:1-5
An expectation-maximization algorithm for probabilistic reconstructions of full-length isoforms from splice graphs.
Xing Y, Yu T, Wu YN, Roy M, Kim J, Lee C

Nucleic acids research. 2006;34(10):3150-60
Probe selection and expression index computation of Affymetrix Exon Arrays.
Xing Y, Kapur K, Wong WH

PLoS ONE. 2006;1:e88
Assessing the application of Ka/Ks ratio test to alternatively spliced exons.
Xing Y, Lee C

Bioinformatics (Oxford, England). 2005 Oct 1;21(19):3701-3
Evidence of functional selection pressure for alternative splicing events that accelerate evolution of protein subsequences.
Xing Y, Lee C

Proceedings of the National Academy of Sciences of the United States of America. 2005 Sep 20;102(38):13526-31
Protein modularity of alternatively spliced exons is associated with tissue-specific regulation of alternative splicing.
Xing Y, Lee CJ

PLoS genetics. 2005 Sep;1(3):e34
Negative selection pressure against premature protein truncation is reduced by alternative splicing and diploidy.
Xing Y, Lee CJ

Trends in genetics : TIG. 2004 Oct;20(10):472-5

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Websites

Xing Lab Page

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