Xiaochun Li's Home Page

Xiaochun Li is an associate professor in the
Division of Biostatistics of Department of Medicine

Indiana University School of Medicine.

Contact Information

Office:

Tel: 317-274-2696
Fax: 317-274-2678

Mailing Address:
Division of Biostatistics Science
Indiana University School of Medicine
410 W 10th St., Suite 3000
Indianapolis, IN 46202

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Templates of Book Chapter to High-Dimensional Data Analysis in Oncology

· templates

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Software

· SurvCov: Estimating Covariate Distribution Conditional on Survival Time (R package)

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Teaching

· Introduction to Bioconductor (Summer School of Univ. of Porto, Portugal, 2008)

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Talks

· Visualization and Machine Learning (pdf, 6.88 MB)

· Estimating Covariate Distribution Conditional on Survival Time (pdf, 323 KB)

· Ranking Genes (pdf,130 KB)

· Pre-processing SELDI-TOF-MS (pdf,185 KB)

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About Microarrays

· References and Links

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Manuscripts

· Conrado J. Llapur, Tanya M. Martínez, Cathy Coates, Christina Tiller, Jennifer L. Wiebke, Xiaochun, Li, Kimberly Applegate, Harvey O. Coxson, Robert S. Tepper (2008, in press) Lung Structure and Function of Infants with Recurrent Wheeze when Asymptomatic. European Respiratory Journal.

· W. Nicholas Haining, Jeffrey Davies, Holger Kanzler, Linda Drury, Thomas Brenn, John Evans, Jill Angelosanto, Steven Rivoli, Kate Russell, Suzanne George, Paul Sims, Xiaochun Li, Jeffrey Kutok, Jeffery Morgan, Patrick Wen, George Demetri, Robert Coffman4, Lee Nadler (2008, in press) CpG oligonucleotides target human lymphocytes to peripheral tissues. Clinical Cancer Research.

· Xiaochun Li and Ronghui Xu (2008, in press) High Dimensional Data Analysis in Oncology, Springer.

· Nancy U Lin, Lisa A Carey, Minetta C Liu, Jerry Younger, Steven E Come, Matthew Ewend, Gordon Harris, Elizabeth Bullitt, Annick van den Abbeele, John Henson, Xiaochun Li, Rebecca Gelman, Harold J Burstein, Elizabeth Kasparian, Ann Crawford, David G. Kirsch, Fred Hochberg, Eric P Winer (2008) Phase 2 Trial of Lapatinib for Brain Metastases in Patients with HER2-Positive Breast Cancer. Journal of Clinical Oncology, April, 26(12):1993-9.

· Andrea F. Patenaude, Sara Orozco, Xiaochun Li, Carolyn Kaelin, Yvedt Matory*, Kathleen Mayzel, Constance A. Roche, Barbara L. Smith, Walden Farkas & Judy E. Garber (2008, in press) Support Needs and Acceptability of Psychological and Peer Consultation: Attitudes of 108 Women Who Had Undergone or Were Considering Prophylactic Mastectomy. Psycho-Oncology, Wiley.

· Qian Shi, Lyndsay N. Harris, Xin Lu,Xiaochun Li, Justin Hwang, Robert Gentleman, J Dirk Iglehart and Alexander Miron. Declining Plasma Fibrinogen Alpha Fragment Identifies HER2-Positive Breast Cancer Patients and Reverts to Normal Levels Post-Surgery. Journal of Proteome Research, 2006, Nov; 5(11):2947-55.

· Xiaochun Li and Meredith Goldwasser (2006) Statistical Approaches to Discovery of Biomarkers for Early Detection of Cancer Using LC-MS/MS. Proceedings of the Joint Statistical Meetings.

· Xiaochun Li and Jaroslaw Harezlak. Visualization in Genomics and Proteomics. In Daniel Berrar, Martin Granzow, and Werner Dubitzky: Fundamentals of Data Mining in Genomics and Proteomics, Springer (2007). (The colored versions of figures in this Chapter can be found here).

· Ian Krop, Annette Mdrz, Hana Carlsson, Xiaochun Li, Noga Qimron, Rebecca Gelman, Stuart Schnitt, Celina Kleer, Charlotta Enerbdck, Kornelia Polyak, A putative role for psoriasin in breast tumor progression. Cancer Research; 2005 Dec 15;65(24):11326-34.

· Sabina Chiaretti,Xiaochun Li, Robert Gentleman, Antonella Vitale, Kathy S. Wang, Franco Mandelli, Robin Foa, Jerome Ritz. Gene Expression Profiles of B-lineage Adult Acute Lymphocytic Leukemia Reveal Distinct Genetic Patterns that Identify Lineage and Distinct Mechanisms of Transformation. Clinical Cancer Research, 2005, 11(20):7209-19.

· Xiaochun Li, Ronghui Xu. Empirical and Kernel Estimation of Covariate Distribution Conditional on Survival Time. Computational Statistics and Data Analysis. 2005; Vol 50/12 pp 3629-3643. In Press. (A draft can be found in BEPRESS).

· Li X., Gentleman R., Lu X., Shi Q., Iglehart J.D., Harris L. and Miron A., SELDI-TOF Mass Spectrometry Protein Data. In Gentleman, R. et al: Bioinformatics and Computational Biology Solutions Using R and Bioconductor, Springer, 2005.

· Huber W, Li X. and Gentleman R., Visualizing Data. In Gentleman, R. et al: Bioinformatics and Computational Biology Solutions Using R and Bioconductor, Springer, 2005.

· Jennifer R. Bellon, M.D., Lawrence N. Shulman, M.D., Steven E. Come, M.D., Xiaochun Li, Ph.D., Rebecca S. Gelman, Ph.D., Barbara J. Silver, B.A., Jay R. Harris, M.D., and Abram Recht, M.D. (2003) A Prospective Study of Concurrent CMF and Reduced-Dose Radiation Therapy in Patients with Early-Stage Breast Cancer, 2004;100(7):1358-64.

· Sabina Chiaretti, Xiaochun Li, Robert Gentleman, Antonella Vitale, Marco Vignetti, Franco Mandelli, Jerome Ritz, Robin Foa. (2003) Gene Expression Profile of Adult T-Cell Acute Lymphocytic Leukemia Identifies Distinct Subsets of Patients with Different Respons to Therapy and Survival Blood, 1 April 2004, Vol. 103, No. 7.
BBC Report of the paper

· Li, Xiaochun and Heckman, NE. (2003) Local Linear Extrapolation. Nonparametric Statistics, Vol. 15, No. 4-5 / Aug.-Oct., pp565-578.

· Xu, Ronghui and Li, Xiaochun (2003) A Comparison of Parametric versus Permutation Methods with Applications to General and Temporal Microarray Gene Expression Data. Bioinformatics, Vol. 19 no. 10, pp. 1284-1289.

· Kneip A, Li X, MacGibbon B, Ramsay J. (2000) Curve Registration by Local Regression. Canadian Journal of Statistics, Vol. 28, No 1, pp. 19-29.

· Ramsay J, Li X.(1998) Curve Registration. Journal of Statistical Society, Series B 6 Part 2, pp. 351-363.

· Gu L, Li X, Chen X, Cai D. (1989) A Generator of Elementary Functions with Quadruple Precision. Proceedings of the Symposium on Scientific Software, China, University of Science and Technology Press.