IU School of Medicins Biostatistics and Computational Biology
Lang Li
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Publications

  1. Vladmir K and Li L. A new symmetry test for multivariate distribution. Journal of Multivariate Analysis 1998, 65, 228-44.
  1. Smith D.C., Redman B.G., Flaherty L.E., Li L., Strawderman M., and Pienta K.J. A phase II trial of oral diethylstilbesterol as a second line hormonal agent in advanced prostate cancer. Urology 1998, 52, 257-260.
  1. McKeever P. E., Junck L., Strawderman M., and Blaivas M, Tkaczyk A, Cates MA, Yan M and Li L. Proliferation Index is related to patient age in Glioblastoma. Neurology 2001, 56, 1216-1218.
  1. Chaib H., Rubin M.A., Mucci N.R., Li L., Taylor M.J., Day M.L., Rhim J., and Macoska J. Activated in Prostate Cancer: A PDZ Domain-Containing Protein Highly Expressed in Human Primary Prostate Tumors. Cancer Research 2001, 61, 2390-2394.
  1. Song J, Tata D, Li L, Taylor J, Bao S, and Miller DL. Combined shockwave and immuno-gene therapy of mouse melanoma and renal carcinoma tumors. Ultrasound in Medicine and Biology, 2002, 28, 957-964.
  1. Li L, Brown M, Lee K. and Gupta S.  Estimation and inference for a spline-enhanced nonlinear population pharmacokinetic model. Biometrics, 2002; 58, 601-611.
  1. Wang Z, Hall S D, Maya JF, Li  L, Ashgar A, and Gorski CJ. Diabetes mellitus increases the in vivo activity of cytochrome P450 2e1 in human. British Journal of Clinical Pharmacology, 2002, 55, 77-85.
  1. Desai M, Li L, Desta Z, Malik M, and Flockhart D. Variability of Heart Rate Correction Methods for the QT Interval: Potential for QTc Overestimation with a Low Dose of Haloperidol. 2002. British Journal of Clinical Pharmacology, 2003, 55, 511-517.
  1. Desai M., Tanus-Santos J., Li L., Gorski J. C., Arefayene M., Liu Y., Desta Z., and Flockhart D. Pharmacokinetics and QT interval pharmacodynamics of oral halporeridol in poor and extensive metabolizers of CYP2D6. The Pharmacogenomic Journal, 2003, 3, 105-113.
  1. Li L, Huang J, Sun S, Shen J, Unverzagt F, Gao S, Hendrie H, Hall K, and Hui S. Selecting Pre-Screening Items for EARLY INTERVENTION Trials of Dementia – A Case Study. Statistics in Medicine, 2004, 23, 271-283.
  1. Zeng G, Hu, Z, Kinch MS, Pan C, Flockhart, Kao C,Gardner TA, Zhang S, Li L, Baldridge LA Koch MO, Ulbright TM, Eble JN, Cheng L: High level expression of EphA2 receptor tyrosine kinase in prostatic intraepithelial neoplasia. American Journal of Pathology, 2003, 163, 2271-6.
  1. Pan C., Kinch, M. S., Sweeney, C. J., Li L., Zhang S.,  Baldridge L .A., Koch M. O., Ulbright T. M., Eble J. N.,  Cheng K. PC cell-derived growth factor (PCDGF, epithelin/granulin precursor) Expression Correlates with Progression of Prostate Cancer. Clinical Cancer Research, 2004, 10, 1333-1337.
  1. Cheng L, Pan C, Zhang JT, Zhang S, Kinch MS, Li L, Baldridge LA, Wade C, Hu Z, Koch MO, Ulbright TM, Eble JN: Loss of 14-3-3s in Prostate Cancer and Its Precursors. Clinical Cancer Research, 2004, 10, 3064-3068.
  1. Li L, Lin X, Brown M, Gupta S. and Lee K. A population pharmacokinetic model with time-dependent covariates measured with errors. Biometrics, 2004, 60, 451-460.
  1. Li L, Desai M., Desta Z., and Flockhart D. QT analysis: a complex answer to a ‘simple’ problem. Statistics in Medicine, 2004, 23, 2625-2643.
  1. Arora R., Koch M. O., Eble J. N., Ulbright T. M., Li L. and Chen L. Heterogeneity of Gleason Grade in Multifocal Adenocarcinoma of the Prostate. Cancer 2004, 100, 2362-6.
  1. Hong H., Kao C., Jeng M. H., Eble J. N., Koch M. O., Gardner T. A., Zhang S., Li L., Pan C., Hu Z., MacLennan G. T., Cheng L. Aberrant Expression of CARM1, a Transcriptional Coactivator of Androgen Receptor, in the Development of Prostate Cancer and Androgen-Independent Status. Cancer, 2004, 101, 83-89. 
  1. Sweeney C., Li L., Shanmugam R.,  Bhat-Nakshatri P., Jayaprakasan V., Baldridge L. A., Gardner T.,  Smith M., Nakshatri H., Cheng L. Nuclear Factor Kappa B is Constitutively Activated in Prostate Cancer In Vitro and is Over-expressed in Prostatic Intra-epithelial Neoplasia and Adenocarcinoma of the Prostate. Clinical Cancer Research, 2004, 10, 5501-5507.
  1. Chen J., Sivachenkoand A. and Li L. High-throughput Protein Interactome Data: Minable or Not?, Proceedings of the 4th ACM SIGKDD Workshop on Data Mining in Bioinformatics at the International Conference on Knowledge Discovery and Data Mining, Seattle, WA, 2004, p18-23.
  1. Jin Y, Desta Z, Stearns V., Ward B., Ho H., Lee J., Skaar T., Storniolo A. M., Li L., Araba A., Blanchard R., Nguyen A., Ullmer L., Hayden J, Lemler S., Weinshilboum R. M., Rae J. M., Hayes D. F., Flockhart D. A. Effects of CYP2D6 Genotype and Antidepressants on Tamoxifen Metabolism During Adjuvant Breast Cancer Treatment. Journal of National Cancer Institute. 2005, 97, 30-39.
  1. Ho H., Pinto A., Hall S. D., Flockhart D. A., Li L., Skaar, T., Cadman, P., O’Connor D. T., Wagner U, Fineberg N., and Weinberger M. H. The Association Between the CYP3A5 Genotype and Blood Pressure. Hypertension. 2005, 45, 294-298.
  1. Li L, Shi H, Yiannoutsos C, Huang Tim and Nephew K. Epigenetic hypothesis tests for methylation and acetylation in a triple microarray system. Journal of Computational Biology. 2005, 12, 370-390.
  1. Adigun A. Q., Pinto A. G., Flockhart D. A., Gorski J. C., Li L., Hall S. D., and Chalasani N. Effect of Cirrhosis and liver transplantation on the gender difference in QT interval. The American Journal of Cardiology, 2005, 95, 691- 694.
  1. Borges S., Li L., Hamman M. A., Jones D. R., Hall S. D., and Gorski C. Dextromethorphan to dextrorphan urinary metabolic ratio does not reflect dextromethorphan oral clearance. Drug Metabolism and Disposition, 2005, 33, 1052-1055.
  1. Rae J., Goetz M., Hayes D., Li L. Storniolo A., Stearns V., and Flockhart D. Letter to the Editor. Breast Cancer Research, 2005, 29, 7.
  1. Shen, C., Li L., and Chen J. Discover True Association Rates in Multi-protein Complex Proteomics Data Sets. Proceedings of the IEEE Computational Systems Biology Bioinformatics Conference, Stanford University, Stanford, CA, published by IEEE Computer Society Press, 2005, 1, 167-174.
  1. Li L. Statistical Methods in Bioinformatics – A review. Briefings in Bioinformatics, 2005, 6, 412.
 
  1. Cibull TL, Jones TD, Li L, Eble JN, Baldridge LA, Malott SR, Luo Y, Cheng L: Overexpression of PIM-1 during progression of prostatic adenocarcinoma. Journal of Clinical Pathology 2006, 59: 285-288.
  1. Marraffa JM., Li L., Ong G., and Lehman DF. Profound metoprolol induced bradycardia precipitated by Darvocet. Clinical Pharmacology and Therapeutics, 2006, 79, 282-286.
  1. Schneider B. P., Skaar T., Sledge G. W., Badve S., Li L., and Flockhart D. A.. Analysis of angiogenesis genes from paraffin-embedded breast tumor and lymph nodes. Breast Cancer Research and Treatment 2006, 96, 209-215.
  1. Li L., Hall S., and Desai M. QT Analysis. Encyclopedia of Biopharmaceutical Statistics. 2006. Marcel Dekker.
 
  1. Sanda C., Weitzel P., Tsukahara T., Schaley J., Edenberg H., Stephen M., McClintick J., Blatt L., Li L., Brodsky L., and Taylor M. Differential gene induction by type I and II interferons and their combination. Journal of Interferon and Cytokine Research 2006, 26, 462-472.
  1. Srirangam A., Mitra R., Wang M., Gorski C., Badve S., Baldridge L.A., Hamilton J., Hawes J., Li L., Orschell C.M., Srour E.F., Blum J.S., Sledge W.G., Nakshatri H., and Potter D.A. Effect of HIV protease inhibitor ritonavir on Akt-regulated cell proliferation in breast cancer. Clinical Cancer Research, 2006, 12, 1883-1896.
 
  1. Wei S., Balch C., Paik H., Kim Y, Baldwin R., Liyanarachchi S., Li L., Wang Z., Wan J., Davuluri R., Karlan B., Gifford G., Brown R., Kim S., Huang T., and Nephew K. Prognostic DNA methylation biomarkers in ovarian cancer. Clinical Cancer Research 2006, 12, 2788-2794.
  1. Borges-Gonzulas S., Desta Z., Li L., Skaar, T., Ward B., Nguyen A., Jin Y., Storniolo M., Nikoloff  M., Koch W., Hayes D., Stearns V., and Flockhart D. Quantitative effect of CYP2D6 genotype and inhibitors on tamoxifen metabolism: implication for optimization of breast cancer treatment. Clinical Pharmacology and Therapeutics 2006, 80, 61-74. 
  1. Shen, C., Li L., and Chen J. A statistical framework to discover true associations from multi-protein complex pull-down proteomics data sets. Proteins: Structure, Function, and Bioinformatics 2006, 64, 436-443.
  1. Lim Y., Li L., Desta D., Zhao Q., Rae, J., Flockhart D. A., and Skaar T. Endoxifen, a secondary metabolite of tamoxifen, and 4-OH-tamoxifen induce similar changes in global gene expression patterns in MCF-7 breast cancer cells. Journal of Pharmacology and Experimental Therapeutics, 2006, 318: 502-513.
  1. Li L., Yu M., Chin R., Lucksiri A., Flockhart D., and Hall S. Drug-drug interaction prediction: A Bayesian meta-analysis approach. Statistics in Medicine, 2007, 26, 3700 - 3721.
  1. Li L., Cheng A. S. L., Jin V., Paik H. H., Fan M., Li X., Zhang W., Robarge J., Balch K., Davuluri R. V., Kim S., Huang T., Nephew K. A Mixture Model Based Discriminate Analysis for Identifying Ordered Transcription Factor Binding Site Pairs in Gene Promoters Directly Regulated by Estrogen Receptor-a. Bioinformatics, 2006, 22: 2210-2216.
  1. Hahn N. M., Marsh S., Fisher W., Langdon R., Zon R., Browning M., Johnson C. S., Scott-Horton T J., Li L., McLeod H L., Sweeney C J. A Hoosier oncology group randomized phase II study of docetaxel plus vinorelbine and docetaxel plus estramustine in combination for the treatment of hormone refractory prostate cancer with pharmacogenetic survival analysis. Clinical Cancer Research, 2006 12, 6094-6099.
  1. Chen Q., Yang Y., Li L., and Zhang J. T. The amino terminus of the human  multidrug resistance transporter ABCC1 has a U-shaped folding with a gating function. Journal of Biological Chemistry, 2006, 281, 31152-31163.
  1. Khalili A., Potter D., Yan P., Li L., Gray J., Huang T., Lin S. Gamma-Normal-Gamma Mixture Model for Detecting Differentially Methylated Loci in three cancer cell lines. Cancer Informatics, 2007, http://la-press.com/journals.php?pa=toc&journal_id=10&folder_id=15.
  1. Li L, Hui S, Desta Z, Todd S, Nguyen A and Flockhart D. Estimating a positive false discovery rate for variable selection in pharmacogenetic studies. Journal of Pharmaceutical Statistics, 2007, (in press).
 
  1. Li L and Hui S. Positive false discovery rate estimate in Step-wise variable selection. Communication in Statistics – Simulation and Computation. 2007, 32, 2, (in press).
  1. Li L., Yu  M., Robarge J., Gao S., Jin Y., Borges-Gonzales S., Nguyen A., Skaar T., Desta Z., McLeod H., Sweeney C J., and Flockhart D. A penalized mixture model approach in gene-gene and gene-environmental interactions for binary phenotypes. 2007 BMC Bioinformatics (revised).
  1. Fan M., Yan P. S., Hartman-Frey C., Chen L., Paik H., Abbosh P., Cheng A. S. L, Li L., Huang H. M. T., and Nephew K. Breast cancer cells with acquired resistance to 4-hydroxytamoxifen and fulvestrant display divergent gene expression and DNA methylation signatures. 2006, Cancer Research, 66, 11964-11966.
  1. Jones D. R., Ekins S., Li L., and Hall S. D. Computational approaches that predict metabolic intermediate complex formation with CYP3A4(+b­­5). 2007 Drug Metab. and Dispos. (in press)
  1. Abbosh P. H., Li X., Li L., Gardner T. A., Kao C., and Nephew K. P. A conditionally replicative, WNT/beta-catenin pathway-based adenovirus therapy for anaplastic thyroid cancer. Cancer Gene Therapy, 2007, 1-10.
  1. Li L., Borges-Gonzales S, Robarge J., Sheng C., Desta Z., and Flockhart D. A Penalized mixture model approach in genotype/phenotype association analysis for quantitative phenotype. Cancer Informatics, 2007, (in press).
  1. Yu M., Kim S., Wang Z., Hall S, and Li L. Drug-drug interaction prediction: A Bayesian meta-analysis approach.  Journal of Biopharmaceutical Statistics, 2007 (in press).
  1. Jin Y., Wang Y-H, Miao J., Li L., Kovacs R J., Marunde R., Hamman M A., Phillips S., Halligoss J., Hall S. D.  Cytochrome P450 3A5 Genotype is Associated with Verapamil Response in Healthy Subjects. Journal of Pharmacology and Experimental Therapeutics, 2007, 82, 579-585.
  1. Desta Z., Saussele T., Ward B., Blievernicht J., Li L., Klein K., Flockhart D A., Zanger M. U. Impact of CYP2B6 polymorphism on efavirenz metabolism in vitro. Pharmacogenomics. 2007, 8, 547-558.
  1. Zhou F., Zhao Q., Edenberg H. J., Goodlett C. R., Liu Y., Li L. Microarray and gene set enrichment analysis of differential gene expression upon alcohol exposure at early neurulation. 2007 (Submitted to ACER).
  1. Humphrey T. L., Li L., Li X., Janowicz D. M., Fortney K. R., Zhao Q., Li W., McClintick J., Katz B. P., Wilks D. S., Edenberg H. J., Spinola S. M. Dysregulated immune profiles in skin and dendritic cells are associated with increased host susceptibility to Haemophilus ducreyi infection in human volunteers. 2007 Journal of Infection and Immunity. (in press).
  1. Mitra R., Srirangam A., Mesaros C., Thomas D., Mohiuddin A., Li L., Badve S., Edenberg H., Blair I., and Potter D. A. CYP3A5 gene expression is a candidate biomarker for early recurrence of non-small cell lung cancer. 2007 (submitted to Clinical Cancer Research).
  1. Zhou J., Qin Z., Kim S., Wang Z., Hall D. S., and Li L. Equivalence tests between reported and drug-drug interaction model predicted logAUCR sample means and variances. Statistics in Medicine. 2007, (revised).
  1. Zhou J., Qin Z., Kim S., Wang Z., Yu M., Chien J. Y., Lucksiri A., Hall D. S., and Li L. A new probabilistic rule for drug-drug interaction prediction. Journal of Pharmacokinetics and Pharmacodynamics. 2007, (submitted).
  1. Robarge J. D., Li L., Desta Z., Nguyen A., and Flockhart D. A. Evaluating genetic nonmenclature of drug metabolizing enzyme. Journal of Clinical Pharmacology and Therapeutics, 2007, 82, 244-248.
  1. Nse, D., Li L., Flockhart D. A., Hayes D. Estrogen receptor genotypes, menopausal status and the lipid effects of  tamoxifen, Journal of Clinical Pharamoclogy and Therapeutics, in press.
  1. Wang, G., Wang, X., Li, L., Nephew, N.P., Edenberg, H.J., Zhou, F.C., Liu, Y. Identification of Transcription Factor and microRNA Binding Sites from Array-derived Gene Expression Data, BMC Genomics 2007 (in press).
  1. Wang, X., Wang, G., Shen, C., Li, L., Edenberg, H.J., Sanford, J., Liu, Y., Refining Detection of Protein Binding Regions Using Pyrosequencing-derived RNA Fragments, BMC Genomics 2007 (in press).
  1. Shen C., Wang Z., Shanker G., Zhang X., and Li L. A Hierarchical Statistical Model to Assess the Confidence of Peptides and Proteins Inferred from Tandem Mass Spectrometry. Bioinformatics, 2007 (in press).
  1. Srinivasan B.S., Chen J.,  Cheng C., Conti D., Duan S., Fridley S., Gu X., Haines J.L., Kraja A., Lasky-Su J., Li L, Rodin A, Province M., and  Ritchie M.D. Methods for analysis in pharmacogenomics: Lessons from the Pharmacogenetics Research Network (PGRN) Analysis Group. (submitted to Pharmacogenetics), 2007.
  1. Hahn N., Kelley M., Klaunig J. E., Koch M. O., Li L., and Sweenry, C.J. Prostate Cancer Germline Pharmacogenetics - Diagnostic, Prevention, and Therapeutic Application. Future Medicine, 2007 (in press).
  1. Henry NL, Giles JT, Ang D, Mohan M, Dadabhoy D, Robarge J, Hayden J, Lemler S, Shahverdi K, Powers P, Li L, Flockhart D, Stearns V, Hayes DF, Storniolo AM, Clauw DJ., Prospective characterization of musculoskeletal symptoms in early stage breast cancer patients treated with aromatase inhibitors. Breast Cancer Res Treatment, 2007, (in press)
  1. Schneider BP, Radovich M, Sledge GW, Robarge JD, Li L, Storniolo AM, Lemler S, Nguyen AT, Hancock BA, Stout M, Skaar T, Flockhart DA. Association of polymorphisms of angiogenesis genes with breast cancer. Breast Cancer Researh Treatment, 2007 (in press).
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