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Publications

2006

Baccam, P., Beauchemin, C., Macken, C.A., Hayden, F.G. and Perelson, A.S. Kinetics of Influenza A Virus Infection in Humans. Journal of Virology 2006; 80:15 7590-7599 PMC1563736

Liang H. Checking linearity of non-parametric component in partially linear models with an application in systemic inflammatory response syndrome study. Stat Methods Med Res. 2006; 15:273-84 PMID16768300

Liu, D., Yu, J., Chen, H., Reichman, R., Wu, H., and Jin, X. Statistical determination of threshold for cellular division in the CFSE-labeling assay. Journal of Immunological Methods 2006; 312:126-136. PMID16712866

Treanor, J., H. Wu, H. Liang, and D. J. Topham. Immune responses to vaccinia and influenza elicited during primary versus recent or distant secondary smallpox vaccination of adults. Vaccine 2006; 24:6913-23 PMID17014939

2007

Huggins J, Pellegrin T, Felgar RE, Wei C, Brown M, Zheng B, Milner ECB, Bernstein SH, Sanz I, Zand MS. CpG DNA Activation and Plasma Cell Differentiation of CD27- Naïve Human B Cells. Blood 2006; 109:1611-1619 PMC1794051

Liang H. Segmental modeling of changing viral load to assess drug resistance in HIV infection. Stat Methods Med Res. 2007; 16:365-73 PMC2824144

Richter, M and Topham DJ. The alpha-1 beta-1 integrin and TNFR-II protect airway CD8+ effector T cells from apoptosis during influenza infection. Journal of Immunolology. 2007; 179:5054-5050 PMID17911590

2008

Beargie C, Liu T, Corriveau M, Lee HY, Gott J, Bundschuh R. Genome annotation in the presence of insertional RNA editing. Bioinformatics 2008;24(22):2571-8 PMC2579709

Chen, J. and Wu, H. Estimation of Time-Varying Parameters in Deterministic Dynamic Models. Statistica Sinica 2008; 18:987-1006

Chen, J. and Wu, H. Efficient Local Estimation for Time-Varying Coefficients in Deterministic Dynamic Models. J American Statistical Association 2008; 103:369-384

Hyrien, O., and Zand, MS. A Mixture Model with Dependent Observations for the Analysis of CFSE-Labeling Experiments. J American Statistical Association 2008; 103:222-239

Lee, HY and Perelson, AS. Modeling T Cell Proliferation and Death In Vitro Based on Labeling Data: Generalizations of the Smith-Martin Cell Cycle Model. Bulletin of Mathematical Biology 2008; 70:21-44. PMID17701260

Liang H. Generalized Partially Linear Models With Missing Covariates. J Multivar Anal. 2008;99(5):880-95. PMC2441450

Liang, H., and Wu, H. Parameter Estimation for Differential Equation Models Using a Framework of Measurement Error in Regression Model. J American Statistical Association 2008; 103:1570-1583 PMC2631937

Liang, H., Wu, H., Zou, G. A Note on Conditional AIC for Linear Mixed-Effects Models. Biometrika 2008; 95:773-778 PMC2572765

Miao, H., Dykes, C., Demeter, L.M., Park, S.Y., Cavenaugh, J. Perelson, A.S., and Wu, H. Modeling and estimation of kinetic parameters and replication fitness of HIV-1 from flow-cytometry-based growth competition experiments. Bull Math Biol 2008; 70:1749-1771 PMID18648886

Rebhahn, J.A.,Bishop, C.,Divekar, A.A.,Jiminez-Garcia, K.,Kobie, J.J.,Lee, F.E-H.,Maupin, G.M.,Snyder-Cappione, J.E.,Zaiss, D.M.,Mosmann, T.R. Automated analysis of two- and three-color fluorescent Elispot (Fluorospot) assays for cytokine secretion. Computer Methods and Programs in Biomedicine 2008;92(1):54-65 PMID18644656

Wu, H., Zhu, H., Miao, H. and Perelson, AS. Parameter Identifiability and Estimation of HIV/AIDS Dynamic Models. Bulletin of Mathematical Biology. 2008; 70:785-799 PMID 18247096

Yakovlev, A.Y., Stoimenova, V.K., and Yanev, N.M. Branching Processes as Models of Progenitor Cell Populations and Estimation of the Offspring Distributions. J American Statistical Assoc 2008; 103:1357-1366

2009

Bauer, A. L., Beauchemin, C., and Perelson, A. S. Agent-Based Modeling of Host-Pathogen Systems: The Successes and Challenges. Information Sciences 2009; 179:1379-1389 PMC2731970

Henn, A. D., J. Rebhahn, M. A. Brown, A. J. Murphy, M. N. Coca, O. Hyrien, T. Pellegrin, T. Mosmann, and M. S. Zand. Modulation of Single-Cell IgG Secretion Frequency and Rates in Human Memory B Cells by CpG DNA, CD40L, IL-21, and Cell Division. J Immunol (2009) 183(5):3177-87 PMC2765874

Kyu, S.Y., Kobie, J., Zand, M.S., Topham, D.J., Quataert, S.A., Sanz, I., and Lee, F. E-H. Frequencies of Human Influenza-Specific Antibody Secreting Cells or Plasmab-lasts post Vaccination from Fresh and Frozen PBMC. J Immunol Meths 2009; 340:42-7 PMID 18996127

Lee, H.Y., Hawkins, E., Zand, M.S., Mosmann, T., Wu, H., Hodgkin, P.D., and Perelson, A.S. Interpreting CFSE obtained Division Histories of B cells in vitro with Smith-Martin and Cyton Type Models. Bull Math Biol 2009; 71(7):1649-70 PMC2834560

Lee, H. Y., D. J. Topham, S. Y. Park, J. Hollenbaugh, J. Treanor, T. R. Mosmann, X. Jin, B. M. Ward, H. Miao, J. Holden-Wiltse, A. S. Perelson, M. Zand, and H. Wu. Simulation and prediction of the adaptive immune response to influenza A virus infection. J Virology 2009; 83:7151-65 PMC2704765 Data:Lee J Virology 2009 83:7151-65 data

Miao, H., Dykes, C., Demeter, L.M., and Wu, H. Differential equation modeling of HIV viral fitness experiments: model identification, model selection, and multi-model inference. Biometrics 2009; 65:292-300 PMC2838508

Ward BM. Using fluorescent proteins to study poxvirus morphogenesis. Methods Mol Biol 2009; 515:1-11 PMID19378136

Yakovlev, A.Y.and Yanev, N.M. Relative Frequencies in Multitype Branching Processes. Annals of Applied Probability 2009; 19:1-14

Yi GY, He W, Liang H. Analysis of correlated binary data under partially linear single-index logistic models. J Multivariate Analysis 2009; 100(2):278-90 PMC2678738

Zhou, Y., and H. Liang. 2009. Statistical Inference for Semiparametric Varying-coefficient Partially Linear Models with Error-prone Linear Covariates. The Annals of Statistics 37:427-458. PMC2652893

2010

Baer J, Santiago F, Hongmei Y, Holden-Wiltse J, Wu H, Treanor JJ. B cell Responses to H5 influenza HA in Human Subjects Vaccinated with a Drifted Variant. Vaccine 2009;28:907-915. PMC2814950

Bernard MP, Bancos S, Chapman TJ, Ryan EP, Treanor JJ, Rose RC, Topham DJ, Phipps RP. Chronic inhibition of cyclooxygenase-2 attenuates antibody responses against vaccinia infection. Vaccine 2010; 28(5):1363-72. PMC2815155

Chan WM, Ward BM. There is an A33-dependent mechanism for the incorporation of B5-GFP into vaccinia virus extracellular enveloped virions. Virology 2010; 402(1):83-93 PMC2872037 PMID 20378144

Chan WM, Kalkanoglu AE, Ward BM. The inability of vaccinia virus A33R protein to form intermolecular disulfide-bonded homodimers does not affect the production of infectious extracellular virus. Virology 2010;408(1):109-18. PMC2981794

Chapman, T. J., and D. J. Topham. 2010. Identification of a Unique Population of Tissue-Memory CD4+ T cells in the Airways after Influenza Infection that is Dependent on the Integrin VLA-1. J Immunol 2010;184(7):3841-9. PMID 20200271PMC2843798

Diehl, A. D., A. D. Augustine, J. A. Blake, L. G. Cowell, E. S. Gold, T. A. Gondré-Lewis, A. M. Masci, T. F. Meehan, P. A. Morel, N. C. O. W. Group, A. Nijnik, B. Peters, B. Pulendran, R. H. Scheuermann, Q. A. Yao, M. S. Zand, and C. J. Mungall. Hematopoietic Cells Types: Prototype for a Revised Cell Ontology.J Biomedical Informatics 2010 Feb 1. [Epub ahead of print] PMC2892030

Guo H, Topham DJ. Interleukin-22 (IL-22) production by pulmonary Natural Killer cells and the potential role of IL-22 during primary influenza virus infection. J Virol. 2010;84(15):7750-9. PMC2897635

Hyrien, O., Chen, R., Mayer-Proschel, M., and Noble, M. Saddlepoint approximations to the moments of age-dependent branching processes, with application. Biometrics 2010;66(2):567-77. PMC2888915

Hyrien O, Chen R, Zand MS. An age-dependent branching process model for the analysis of CFSE-labeling experiments.Biol Direct. 2010;5(1):41. PMC2914727

Liang H, Miao H, Wu H. Estimation of constant and time-varying dynamic parameters of HIV infection in a nonlinear differential equation model. Ann Appl Stats 2010;4(1):460-83. PMC2885820

Ma J, Dykes C, Wu T, Huang Y, Demeter L, Wu H. vFitness: a web-based computing tool for improving estimation of in vitro HIV-1 fitness experiments. BMC Bioinformatics 2010;11:261. PMC2882933

Miao H, Hollenbaugh J, Zand MS, Holden-Wiltse J, Mosmann TR, Perelson AS, Wu H, and Topham, DJ. Quantifying the Early Immune Response and Adaptive Immune Response Kinetics in Mice Infected by Influenza A Virus. J Virol. 2010;84(13):6687-98. PMC2903284

Smith, A. M.,  Adler F.R., and A. S. Perelson. An accurate two-phase approximate solution to an acute viral infection model. J Math Biol 2010; 60(5):711-26 PMC2841722

Xue H, Miao H, Wu H. Sieve Estimation of Constant and Time-Varying Coefficients in Nonlinear Ordinary Differential Equation Models by Considering Both Numerical Error and Measurement Error. Ann Stats 2010;38(4):2351-87. PMC2995285

2011

Chapman TJ, Lambert K, Topham DJ. Rapid Reactivation of Extralymphoid CD4 T Cells during Secondary Infection. PLoS One. 2011;6(5):e20493.PMC3103554.

Fang Y, Wu H, Zhu L. A Two-Stage Estimation Method for Random Coefficient Differential Equation Models with Application to Longitudinal HIV Dynamic Data. Statistic Sinica 2011;21, 1145-1170. PMC3235714

Guo H, Santiago F, Lambert K, Takimoto T, Topham DJ. T cell-mediated protection against lethal 2009 pandemic H1N1 influenza virus infection in a mouse model. J Virol 2011;85(1):448-55.PMC3014175

Hoopes JD, Driebe EM, Kelley E, Engelthaler DM, Keim PS, Perelson AS, et al. Triple combination antiviral drug (TCAD) composed of amantadine, oseltamivir, and ribavirin impedes the selection of drug-resistant influenza A virus. PLoS One. 2011;6(12):e29778.PMC3248427

Liu D, Lu T, Niu XF, Wu H. Mixed-Effects State Space Models for Analysis of Longitudinal Dynamic Systems. Biometrics. 2011; 67,476-485. PMC3507995.

Lu T, Liang H, Li H, Wu H. High Dimensional ODEs Coupled with Mixed-Effects Modeling Techniques for Dynamic Gene Regulatory Network Identification. Journal of American Statistical AssociationPMC3509540.

Miao H, Jin X, Perelson AS, Wu H. Evaluation of Multitype Mathematical Models for CFSE-Labeling Experiment Data. Bull Math Biol. 2011;74(2):300-26. PMC3196768

Miao H, Xia X, Perelson AS, Wu H. On identifiability of nonlinear ODE models with applications in viral dynamics. SIAM Rev 2011;53:3-39. PMC3140286

Scheible K, Zhang G, Baer J, Azadniv M, Lambert K, Pryhuber G, Treanor JJ, Topham DJ. CD8+ T cell immunity to 2009 pandemic and seasonal H1N1 influenza viruses. Vaccine 2011;29(11):2159-68 PMC3061835

Smith A, Adler F, McAuley J, Gutenkunst R, Ribeiro R, McCullers J, Perelson A. Effect of 1918 PB1-F2 expression on influenza A virus infection kinetics. PloS Comput Biol. 2011;7(2):e1001081 PMC3040654

Smith AM, McCullers JA, Adler FR. Mathematical model of a three-stage innate immune response to a pneumococcal lung infection. J Theor Biol 2011;276(1):106-16. PMC3066295

Smith AM, Perelson AS. Influenza A virus infection kinetics: quantitative data and models. Wiley Interdiscip Rev Syst Biol Med 2011; 3(4):429-45PMC3256983

Ward BM. The taking of the cytoskeleton one two three: how viruses utilize the cytoskeleton during egress. Virology. 2011;411(2):244-50. PMC3049855

Wu H, Kumar A, Miao H, Holden-Wiltse J, Mosmann TR, Livingstone A, Belz GT, Perelson AS, Zand MS, Topham DJ. Modeling the Growth and Migration Rates of Influenza Virus-Specific Effector CD8+ T Cells Indicates that the Spleen Is a Major Contributor to the Primary Response. Journal of Immunology 2011; Sep23 [Epub ahead]doi:10.4049/jimmunol.1101443; PMC3197949

2012

Cao J, Huang J, Wu H. Penalized nonlinear least squares estimation of time-varying parameters in ordinary differential equations. Journal of Computational and Graphical Statistics. 2012;21:42-56.PMC3496750

Guo H, Topham DJ. Multiple Distinct Forms of CD8+ T Cell Cross-Reactivity and Specificities Revealed after 2009 H1N1 Influenza A Virus Infection in Mice. PLoS One. 2012;7(9):e46166.PMC3459832

Henn A, Laski M, Yang H, Welle S, Qiu X, Miao H, Barry C, Wu H, Zand MS. Functionally Distinct Subpopulations of CpG-Activated Memory B Cells. Sci Rep. 2012;2:345. PMC3315693

Lee Y, Wu H. MARS Approach for Global Sensitivity Analysis of Differential Equation Models with Applications to Dynamics of Influenza Infection. Bull Math Biol. 2012;74(1):73-90. PMC3496759

Xi Li, Hongyu Miao, Alicia Henn, David J. Topham, Hulin Wu, Martin S. Zand, and Tim R. Mosmann. Ki-67 expression reveals strong, transient influenza specific CD4 T cell responses after adult vaccination. Vaccine. 2012;30(31):4581-4. PMC3858959

Ortiz-Riano E, Cheng BY, de la Torre JC, Martinez-Sobrido L. D471G mutation in LCMV-NP affects its ability to self-associate and results in a dominant negative effect in viral RNA synthesis. Viruses. 2012;4(10):2137-61.PMC3497045

Pawelek KA, Huynh GT, Quinlivan M, Cullinane A, Rong L, Perelson AS. Modeling within-host dynamics of influenza virus infection including immune responses. PloS Comput Biol. 2012;8(6):e1002588.PMC3386161

Perelson AS, Rong L, Hayden FG. Combination antiviral therapy for influenza: predictions from modeling of human infections. J Infect Dis . 2012;205(11):1642-5. PMC3415857

Pythoud C, Rodrigo WW, Pasqual G, Rothenberger S, Martinez-Sobrido L, de la Torre JC, Kunz S. Arenavirus nucleoprotein targets interferon regulatory factor-activating kinase IKKepsilon. J Virol. 2012;86(15):7728-38. PMC3421673

Rodrigo WW, Ortiz-Riano E, Pythoud C, Kunz S, de la Torre JC, Martinez-Sobrido L. Arenavirus nucleoproteins prevent activation of nuclear factor kappa B. J Virol. 2012;86(15):8185-97. PMC3421694

Wu H, Xue H, Kumar A. Numerical discretization-based estimation methods for ordinary differential equation models via penalized spline smoothing with applications in biomedical research. Biometrics . 2012;68(2):344-52. PMC3496749

2013

Arazi A, Pendergraft III WF, Ribeiro RM, Perelson AS, Hacohen N. Human systems immunology: Hypothesis-based modeling and unbiased data-driven approaches. Seminars in Immunology 2013;25(3):193-200. PMC3836867

Ayllon J, Garcia-Sastre A, Martinez-Sobrido L. Rescue of Recombinant Newcastle Disease Virus from cDNA. J Vis Exp. 2013;80:(80)e50830.

Baker SF, Guo H, Albrecht RA, Garcia-Sastre A, Topham DJ, Martinez-Sobrido L. Protection against Lethal Influenza with a Viral Mimic. J Virol. Aug 2013;87(15):8591-8605. PMC3719819

Bauman JD, Patel D, Baker SF, Vijayan RS, Xiang A, Parhi AK, Martinez-Sobrido L, LaVoie EJ, Das K, Arnold E. Crystallographic fragment screening and structure-based optimization yields a new class of influenza endonuclease inhibitors. ACS Chem Biol. 2013;8(11):2501-8. PMC3928712

Cheng BY, Ortiz-Riano E, de la Torre JC, Martinez-Sobrido L. Generation of Recombinant Arenavirus for Vaccine Development in FDA-Approved Vero Cells. J Vis Exp. 2013(78). PMC3846745

De Boer RJ, Perelson AS. Quantifying T lymphocyte turnover. J Theor Biol. 2013;Jun 21(327):45-87. [Epub ahead of print]. PMC3640348

De Boer RJ, Perelson AS. Antigen-stimulated CD4 T cell expansion can be limited by their grazing of peptide-MHC complexes. J Immunol. Jun 1 2013;190(11):5454-5458.PMC3661195

Henn AD, Wu S, Qiu X, Ruda M, Stover M, Yang H, Liu Z, Welle SL, Holden-Wiltse J, Wu H, Zand MS. High-resolution temporal response patterns to influenza vaccine reveal a distinct human plasma cell gene signature. Sci Rep. Jul 31 2013;3:2327. PMC3728595

Murillo LN, Murillo MS, Perelson AS. Towards multiscale modeling of influenza infection. J Theor Biol. Sep 7 2013;332:267-290.PMC3758892

Ortiz-Riano E, Cheng BY, Carlos de la Torre J, Martinez-Sobrido L. Arenavirus reverse genetics for vaccine development. J Gen Virol. 2013;94(Pt 6):1175-88.PMC3709625

Qiu X, Wu H, Hu R. The Impact of Quantile and Rank Normalization Procedures on the Testing Power of Gene Differential Expression Analysis. BMC Bioinformatics. 2013;14(124)PMC3660216

Quinn M, Z K, Martinez-Sobrido L, Schlesinger J, Jin X. Increased virus uptake alone is insufficient to account for viral burst size increase during antibody-dependent enhancement of Dengue viral infection. J Immunol Tech Infect Dis. 2013;2(3): doi:10.4172/2329-9541.1000111.

Sangster MY, Baer J, Santiago FW, Fitzgerald T, Ilyushina NA, Sundararajan A, Henn AD, Krammer F, Yang H, Luke CJ, Zand MS, Wright PF, Treanor JJ, Topham DJ, Subbarao K. B cell response and hemagglutinin stalk-reactive antibody production in different age cohorts following 2009 H1N1 influenza virus vaccination. Clin Vaccine Immunol. Jun 2013;20(6):867-876. PMC3675965

Smith AM, Adler FR, Ribeiro RM, Gutenkunst RN, McAuley JL, McCullers JA, Perelson AS. Kinetics of coinfection with influenza A virus and Streptococcus pneumoniae. PLoS Pathog. 2013;9(3):e1003238. doi:10.1371/journal.ppat.PMC3605146

Wang J, Zhang L, Jing C, Ye G, Wu H, Miao H, Wu Y, Zhou X. Multi-scale agent-based modeling on melanoma and its related angiogenesis analysis. Theor Biol Med Model. 2013;10:41.PMC3694033

Wu S, Liu Z-P, Qiu X, Wu H. High-Dimensional Ordinary Differential Equation Models for Reconstructing Genome-Wide Dynamic Regulatory Networks. In: Hu M, Liu YJ, Lin J, editors. Topics in Applied Statistics, 2012 Symposium of the International Chinese Statistical Association. New York: Springer; 2013. p. 173-90.

Wu S, Wu H. More Powerful Significant Testing for Time Course Gene Expression Data Using Functional Principal Component Analysis Approaches. BMC Bioinformatics 2013;14(1):6.PMC3617096

Yang H, Topham DJ, Holden-Wiltse J, Wu H. Statistical Estimation & Inference of Cell Counts from ELISPOT Limiting Dilution Assays. J Biopharm Stat. Jul 4 2013;23(4):921-936.PMC3803109

2014

Baker SF, Nogales A, Finch C, Tuffy KM, Domm W, Perez DR, Topham DJ, Martinez-Sobrido L. Influenza A and B virus intertypic reassortment through compatible viral packaging signals. J Virol. 2014;88(18):10778-91. doi: 10.1128/JVI.01440-14. PMC4178878.

Canini L, Conway JM, Perelson AS, Carrat F. Impact of different oseltamivir regimes on treating influenza A virus infection and resistance emergence: insights from a modeling study. PLoS Comp Biol. 2014;10(4):e1003568. PMC3990489

Ding AA, Wu H. Estimation of ODE Parameters Using Constrained Local Polynomial Regression. Statistica Sinica 2014;24(4):1613-31.

Domm W, Brewer M, Baker SF, Feng C, Martinez-Sobrido L, Treanor J, Dewhurst S. Use of bacteriophage particles displaying influenza virus hemagglutinin for the detection of hemagglutination-inhibition antibodies. J Virol Methods. 2014;197:47-50. PMC4037851

Guo H, Baker SF, Martinez-Sobrido L, Topham DJ. Induction of CD8 T cell heterologous protection by a single dose of single-cycle infectious influenza virus. J Virol. 2014;88(20):12006-16. doi: 10.1128/JVI.01847-14.PMC4178714.

Hernandez-Vargas EA, Wilk E, Canini L, Toapanta FR, Binder SC, Uvarovskii A, Ross TM, Guzman CA, Perelson AS, Meyer-Hermann M. Effects of aging on influenza virus infection dynamics. J Virol. 2014;88(8):4123-31. PMC3993746

Linel P, Wu S, Deng N, Wu H. Dynamic transcriptional signatures and network responses for clinical symptoms in influenza-infected human subjects using systems biology approaches. J Pharmacokinet Pharmacodyn. 2014. [in press]

Liu ZP, Wu H, Zhu J, Miao H. Systematic identification of transcriptional and post-transcriptional regulations in human respiratory epithelial cells during influenza A virus infection. BMC Bioinformatics. 2014;15:336. PMC4287445.

Miao H, Sangster MY, Livingstone AM, Hilchey S, Zhang L, Topham DJ, Mosmann TR, Holden-Wiltse J, Perelson AS, Wu H, Zand M. Modeling the dynamics and migratory pathways of virus-specific antibody-secreting cell populations in primary influenza infection. PLoS One. 2014;9(8):e104781. PMC4149352

Miao H, Wu H, Xue H. Generalized Ordinary Differential Equation Models. J Am Stat Assoc. 2014;109(508):1672-82.PMC4274811.

Nogales A, Baker SF, Ortiz-Riano E, Dewhurst S, Topham DJ, Martinez-Sobrido L. Influenza A virus attenuation by codon deoptimization of the NS gene for vaccine development. J Virol. 2014;88(18):10525-40. PMC4178899

Ortiz-Riano E, Ngo N, Devito S, Eggink D, Munger J, Shaw ML, de la Torre JC, Martinez-Sobrido L. Inhibition of arenavirus by A3, a pyrimidine biosynthesis inhibitor. J Virol. 2014;88(2):878-89.PMC3911634

Qiu X, Hu R, Wu Z. Evaluation of bias-variance trade-off for commonly used post-summarizing normalization procedures in large-scale gene expression studies. PLoS One. 2014;9(6):e99380.PMC40624094.

Ramon S, Baker SF, Sahler JM, Kim N, Feldsott EA, Serhan CN, Martinez-Sobrido L, Topham DJ, Phipps RP. The specialized proresolving mediator 17-HDHA enhances the antibody-mediated immune response against influenza virus: a new class of adjuvant? J Immunol. 2014;193(12):6031-40.PMC4258475.

Rebhahn JA, Deng N, Sharma G, Livingstone AM, Huang S, Mosmann TR. An animated landscape representation of CD4 T-cell differentiation, variability and plasticity: Insights into the behavior of populations versus cells. ,em>Eur J Immunol. 2014;44(8):2216-29. PMC4209377.

Shi L, Huang Z, Wu H, Wu S, Hu N, Yang Z, Zhang L. Integrating Semantic Query Function into D-NetWeaver. J Med Imaging and Health Informatics. 2014;[accepted].

Wu H, Lu T, Xue H, Liang H. Sparse Additive Ordinary Differential Equations for Dynamic Gene Regulatory Network Modeling. J Am Stat Assoc. 2014;109(506):700-16. PMC4104722

Wu H, Miao H, Xue H, Topham DJ, Zand MS. Quantifying Immune Response to Influenza A Virus Infections via Multivariate Nonlinear ODE Models with Partially Observed State Variables and Time-Varying Parameters. Journal of Statistics in Biosciences. 2014:1-20. doi: 10.1007/s12561-014-9108-2.

Wu S, Liu Z-P, Qiu X, Wu H. Modeling genome-wide dynamic regulatory network in mouse lungs with influenza infection using high-dimensional ordinary differential equations. PLoS One. 2014; 9(5):e95276.PMC4011728

Wu S, Xue H, Wu Y, Wu H. Variable Selection for Sparse High-Dimensional Nonlinear Regression Models by Combining Nonnegative Garrote and Sure Independence Screening. Stat Sin. 2014;24(3):1365-87. PMC4142445

2015

Liu ZP, Wu C, Miao H, Wu H. RegNetwork: An Integrated Database of Transcriptional and Post-Transcriptional Regulatory Networks in Human and Mouse. Database : the journal of biological databases and curation. 2015:1-12. doi: doi: 10.1093/database/bav095

Qiu X, Wu S, Wu H. A New Information Criterion Based on Mixture Langevin Distribution for Clustering Circular Data with Application to Time Course Genomic Data. Statistic Sinica. 2015;25:1459-76.

Qiu X, Wu S, Hilchey S, Thakar J, Liu Z-P, Welle SL, Henn AD, Wu H, Zand MS. Diversity in Compartmental Dynamics of Gene Regulatory Networks: The Immune Response in Primary Influenza A Infection in Mice. PLoS One. 2015:10(9): e0138110. doi:10.1371/journal.pone.0138110.

Yang H, Baker SF, Gonzalez ME, Topham DJ, Martinez-Sobrido L, Zand M, Holden-Wiltse J, Wu H. An Improved Method for Estimating Antibody Titers in Microneutralization Assay Using Green Fluorescent Protein. J Biopharma Stat. 2015. doi: 10.1080/10543406.2015.1052475.

Zand MS, Wang J, Hilchey S. Graphical representation of proximity measures for multidimensional data: Classical and metric multidimensional scaling. Mathematica Journal. 2015;17 Epub 2015 Sep 30

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