Year 2021 (Impact Factor: IF)

X. Chen, A. F. Neuwald, L. Hilakivi-Clarke, R. Clarke, J. Xuan*, “Inferring active trans-regulatory modules to predict functional regulatory elements’ to PLOS Computational Biology,” PLOS Computational Biology, 17(7): e1009203, 2021. [External Link]

X. Chen, A. F. Neuwald, J. Gu, L. Hilakivi-Clarke, R. Clarke & J. Xuan*, “Identifying intracellular signaling modules and exploring pathways associated with breast cancer recurrence,” Scientific Reports, 2021.  (IF = 4.011; 2019 ISI) [External Link]

X. Chen, X. Shi, A. F. Neuwald, L. Hilakivi-Clarke, R. Clarke, J. Xuan*, “ChIP-BIT2: a software tool to detect weak binding events using a Bayesian integration approach,” BMC Bioinfomatics, 22:193, 2021 (;‑021‑04108‑5)

X. Shi, X. Wang, A. F. Neuwald, L. Hilakivi-Clarke, R. Clarke, J. Xuan*, “A Bayesian approach for accurate de novo transcriptome assembly,” Scientific Reports, 11:17663, 2021. [External Link]

 Year 2020 (Impact Factor: IF)

X. Shi*, A. F. Neuwald, X. Wang, T.-L. Wang, L. Hilakivi-Clarke, R. Clarke, and J. Xuan*, “IntAPT: Integrated assembly of phenotype-specific transcripts from multiple RNA-seq profiles,” Bioinformatics, 2020. (IF = 5.610) [External Link]

X. Chen*, J. Gu, A. F. Neuwald, L. Hilakivi-Clarke, R. Clarke & J. Xuan*, “BICORN: An R package for integrative inference of de novo cis-regulatory modules,” Scientific Reports, volume 10, Article number: 7960, 2020.  (IF = 4.011; 2019 ISI) [External Link]

X. Chen* and J. Xuan*, “MSIGNET: A Bayesian Approach for Disease-associated Gene Network Identification,” OBM Genetics, 4(2), 2020. (doi:10.21926/obm.genet.2002107) [External Link]

Y. S. Rahmanto , W. Shen , X. Shi , X. Chen , Y. Yu , R. Asaka , T. Miyamoto , M. Lee , V. Singh , M. Vitolo , S. Martin , G. Shimberg , D. Wirtz , R. Drapkin , J. Xuan , T.-L. Wang, I.-M. Shih, “In vivo Inactivation of ARID1A in Endometrium Promotes Endometrioid Tumorigenesis through Aberrant Transcriptional Regulation of the TGF-β Signaling Pathway,” Nature Communications, 11, Article number: 2717, 2020. (IF=11.878; 2019 ISI) [External Link]

X. Shi, X. Wang, Hilakivi-Clarke, R. Clarke, A. F. Neuwald, J. Xuan*, “Bayesian identification of differentially expressed isoforms using a novel joint model of RNA-seq data,” PLOS ONE, 2020. (in revision)

 Year 2019

Y. Yu, Y. S. Rahmanto, Y.-A. Shen, L. Ardighieri, B. Davidson, S. Gaillard, A. Ayhan, X. Shi, J. Xuan, T.-L. Wang, I.-M. Shih, “Spleen tyrosine kinase activity regulates epidermal growth factor receptor signaling pathway in ovarian cancer,” EBioMedicine, 2019. (IF=6.680; 2018 ISI) [External Link]

R. Clarke, J. J. Tyson, M. Tan, L. W. T. Baumann, L. Jin, J. Xuan, and Y. Wang, “Systems biology: perspectives on multiscale modeling in research on endocrine-related cancers,” Endocrine-Related Cancer, 26(6):R345-368, 2019. (IF=5.331; 2017 ISI)

{Book Chapter} X. Chen and J. Xuan, “Bayesian integration for gene network inference,” Bayesian Inference, 2019.

 Year 2018

X. Shi, X. Wang, T.-L. Wang, L. Hilakivi-Clarke, R. Clarke, and J. Xuan*, “SparseIso: A novel Bayesian approach to identify alternatively spliced isoforms from RNA-seq data,” Bioinformatics, 34(1):56-63, 2018. (IF=4.531) [External Link]

 X. Chen, J. Gu, X. Wang, J.-G. Jung, T.-L. Wang, L. Hilakivi-Clarke, R. Clarke, and J. Xuan*, “CRNET: An efficient sampling approach to infer functional regulatory networks by integrating large-scale ChIP-seq and time-course RNA-seq data,” Bioinformatics, 34(10):1733-1740, 2018. (IF=4.531) [External Link]

 Year 2017

X. Wang, J. Gu, L. Hilakivi-Clarke, R. Clarke, and J. Xuan*, “DM-BLD: Differential methylation detection using a hierarchical Bayesian model exploiting local dependency,” Bioinformatics, 33(2):161-168, 2017. (IF=5.481) [External Link]

 X. Chen, X. Shi, L. Hilakivi-Clarke, A. Shajahan-Haq, R. Clarke, and J. Xuan*, “PSSV: A novel pattern-based probabilistic approach for somatic structural variation identification,” Bioinformatics, 33(2):177-183, 2017. (IF=5.481) [External Link]

 X. Shi#, S. Banerjee#, L. Chen, L. Hilakivi-Clarke, R. Clarke, and J. Xuan*, “CyNetSVM: A Cytoscape app for cancer biomarker identification using network constrained support vector machines,” PLoS ONE, 12(1): e0170482, 2017. (IF=2.766) (#contributed equally.) [External Link]

N. M. Nguyen, F. de Oliveira Andrade, L. Jin, X. Zhang, M. Macon, M. I. Cruz, C. Benitez, B. Wehrenberg, C. Yin, X. Wang, J. Xuan, S. de Assis, L. Hilakivi-Clarke, “Maternal intake of high n-6 polyunsaturated fatty acid diet during pregnancy causes transgenerational increase in mammary cancer risk in mice,” Breast Cancer Research, 19:77, 2017. (IF=6.142) [External Link]

 Year 2016

 X. Chen, J.-G. Jung, A. N. Shajahan-Haq, R. Clarke, I.-M. Shih, Y. Wang, L. Magnani, T.-L. Wang, and J. Xuan*, “ChIP-BIT: Bayesian inference of target genes using a novel joint probabilistic model of ChIP-seq profiles,” Nucleic Acids Res., 44(7):e65, 2016. (IF=10.161) [External Link]

L Hilakivi-Clarke, A Warri, K B. Bouker, X Zhang, K L. Cook, L Jin, A Zwart, N Nguyen, R Hu, M. I Cruz, S de Assis, X Wang, J Xuan, Y Wang, B Wehrenberg, R Clarke, “Effects of In Utero Exposure to Ethinyl Estradiol on Tamoxifen Resistance and Breast Cancer Recurrence in a Preclinical Model,” Journal of the National Cancer Institute, 109, 2016. (IF=12.589) [External Link]

 Year 2015

 X. Shi, R. O. Barnes, L. Chen, A. N. Shajahan-Haq, L. Hilakivi-Clarke, R. Clarke, Y. Wang, J. Xuan*, “BMRF-Net: a software tool for identification of protein interaction subnetworks by a bagging Markov random field-based method,” Bioinformatics, 31(14):2412-2414, 2015. (IF=5.766) [External Link]

 X. Shi, X. Wang, A. Shajahan, L. Hilakivi-Clarke, R. Clarke and J. Xuan* , “BMRF-MI: integrative identification of protein interaction network by modeling the gene dependency,” BMC Genomics , 16(Suppl 7):S10, 2015. (IF=3.867) [External Link]

Y. Kobayashi, H. Kashima, R.-C. Wu, J.-G. Jung, J.-C. Kuan, J. Gu, J. Xuan, L. Sokoll, K. Visvanathan, I.-M. Shih, T.-L. Wang, “Mevalonate pathway antagonist suppresses formation of serous tubal intraepithelial carcinoma and ovarian carcinoma in mouse models,” Clinical Cancer Research , 21(20):4652-4662, 2015. (IF=8.738) [External Link]

Y. Liu, L. Hilakivi-Clarke, Y. Zhang, X. Wang, Y. Pan, J. Xuan, S. Fleck, D. Doerge, W. Helferich, “Isoflavones in soy flour diet have different effects on whole-genome expression patterns than purified isoflavone mix in human MCF-7 breast tumors in ovariectomized athymic nude mice,” Molecular Nutrition and Food Research, 59(8):1419-1430, 2015. (IF=4.551) [External Link]

N. Wang, T. Gong, R. Clarke, L. Chen, I.-M. Shih, Z. Zhang, D. A. Levine, J. Xuan and Y. Wang, “UNDO: a Bioconductor R package for unsupervised deconvolution of mixed gene expressions in tumor samples,” Bioinformatics, vol. 31, pp. 137-139, 2015. (IF=5.766) [External Link]

Y. Tian, B. Zhang, E. P. Hoffman, R. Clarke, Z. Zhang, I.-M. Shih, J. Xuan, D. M. Herrington, and Y. Wang, “KDDN: An open-source Cytoscape app for constructing differential dependency networks with significant rewiring,” Bioinformatics, vol. 31, pp. 287-298, 2015. (IF=5.766) [External Link]

 Year 2014

 J. Gu, X. Wang, L. Halakivi-Clarke, R. Clarke, and J. Xuan*, “BADGE: A novel Bayesian model for accurate abundance quantification and differential analysis of RNA-Seq data,” BMC Bioinformatics, 15(Suppl 9):S6, 2014. (IF=2.67) [External Link]

S. Dadgar, Z. Wang, H. Johnston, A. Kesari, K. Nagaraju, Y.-W. Chen, D. A. Hill, T. A. Partridge, M. Giri, J. Nazarian, J. Xuan, Y. Wang, and E. P. Hoffman, “Asynchronous remodeling as a driver for failed regeneration in Duchenne Muscular Dystrophy,” The Journal of Cell Biology, vol. 207, pp. 139-158, 2014. (IF=9.834) [External Link]

Y. Tian, B. Zhang, E. P. Hoffman, R. Clarke, Z. Zhang, I.-M. Shih, J. Xuan, D. M. Herrington, and Y. Wang, “Knowledge-fused differential dependency network models for detecting significant rewiring in biological networks,” BMC Systems Biology, 2014, 8:87, (IF=2.435) [External Link]

 Year 2013

 L. Chen, J. Xuan*, R. Riggins, Y. Wang, and R. Clarke, “Identifying protein interaction subnetworks by a bagging Markov random field-based method,” Nucleic Acids Research, 41(2):e42, 2013. (IF=8.808) [External Link]

 X. Shi, J. Gu, X. Chen, A. N. Shajahan, L. Hilakivi-Clarke, R. Clarke, and J. Xuan*, “mAPC-GibbsOS: An integrated approach for robust identification of gene regulatory networks,” BMC Systems Biology, 7(Suppl 5):S4, 2013. (IF=2.853) [External Link]

 X. Chen, J. Xuan*, C. Wang, A. N. Shajahan, R. B. Riggins, and R. Clarke, “Reconstruction of Transcriptional Regulatory Networks by Stability-based Network Component Analysis,” IEEE/ACM Trans. Computational Biology and Bioinformatics, 10(6):1347-1358, 2013. (IF=1.536)

 Y. Zhang, J. Xuan, R. Clarke, and R. Habtom, “Module-Based Breast Cancer Classification,” Intl J of Data Mining and Bioinformatics, 7(3):284-302, 2013. [External Link]

N. Wang, F. Meng, Li. Chen, Subha Madhavan, Robert Clarke, E.P. Hoffman, J. Xuan, and Y. Wang, “The CAM Software for Nonnegative Blind Source Separation in R-Java,” Journal of Machine Learning Research, 14 (2013) 2899-2903, 2013. (IF=2.853)

Y. Tian, L. Chen, B. Zhang, Z. Zhang, G. Yu, R. Clarke, J. Xuan, I-M Shih, and Y. Wang, “Genomic and network analysis to study origin of ovarian cancer,” Systems Biomedicine, 1:1, 62-71, 2013.

 Year 2012

 J. Gu, J. Xuan*, R. B. Riggins, L. Chen, Y. Wang, and R. Clarke, “Robust identification of transcriptional regulatory networks using a Gibbs sampler on outlier sum statistic,” Bioinformatics, 28(15):1990-1997, 2012. (IF=5.323) [External Link]

 X. Chen, M. M. Thiaville, L. Chen, A. Stoeck, J. Xuan, M. Gao, I-M Shih, and T-L Wang, “Definition of NOTCH3 target genes in ovarian cancer,”Cancer Research, 72(9):2294-2303 2012. (IF=8.65) [External Link]

 C. Wang, J. Xuan*, I.-M. Shih, R. Clarke, and Y. Wang, “Regulatory component analysis: a semi-blind extraction approach to infer gene regulatory networks with imperfect biological knowledge,” Signal Processing, vol. 92, no. 8, pp. 1902-1915, 2012. (IF=1.851)

 C. Wang, S. Ha, J. Xuan*, Y. Wang, and E. Hoffman, “Computational analysis of muscular dystrophy subtypes using a novel integrative scheme,” Neuocomputing, vol. 92, pp. 9-17, 2012. (IF=1.635)

R. Clarke, K. L. Cook, R Hu, C. O. B. Facey, I. Tavasoly, J. L. Schwartz, W. T. Bauman, J. J. Tyson, J. Xuan, Y. Wang, A. Warri, A. N. Shajahan, “Endoplasmic Reticulum Stress, the Unfolded Protein Response, Autophagy, and the Integrated Regulation of Breast Cancer Cell Fate,” Cancer Research, 72:1321, 2012. (IF=8.65) [External Link]

K. B. Bouker, Y. Wang, J. Xuan, R. Clarke, “Antiestrogen resistance and the application of systems biology,” Drug Discovery Today: Disease Mechanisms, 9(1-2):e11-e17, 2012.

 Year 2011

L. Chen, J. Xuan*, R. B. Riggins, R. Clarke, and Y. Wang, “Identifying cancer biomarkers by network-constrained support vector machines,” BMC Systems Biology, 5:161, 2011. (IF = 3.15) [External Link]

 T. Gong, J. Xuan*, L. Chen, R. B. Riggins, H. Li, E. P. Hoffman, R. Clarke, and Y. Wang, “Motif-guided sparse decomposition of gene expression data for regulatory module identification,” BMC Bioinformatics, 12:82, 2011. (IF=2.75) [External Link]

 S. Ha, I. Kim, Y. Wang and J. Xuan*, “Applications of different weighting schemes to improve pathway-based analysis,” Comparative and Functional Genomics, vol. 2011, Article ID 463645, 15 pages, 2011. [External Link]

B. Zhang, Y. Tian, L. Jin, H. Li, I.-M. Shih, S. Madhavan, R. Clarke, E.P. Hoffman, J. Xuan, L. Hilakivi-Clarke, and Y. Wang*, “DDN: A caBIG analytical tool for differential network analysis,” Bioinformatics, vol. 27, no. 7, pp. 1036-1038, 2011. (IF=5.468) [External Link]

G. Yu, H. Li, S. Ha, I.-M. Shih, R. Clarke, E.P. Hoffman, S. Madhavan, J. Xuan, and Y. Wang, “PUGSVM: A caBIG analytical tool for multiclass gene selection and predictive classification,” Bioinformatics, vol. 27, no. 5, pp.736-738, 2011. (IF=5.468) [External Link]

{Book Chapter} Y. Wang, H. Li, D J Miller, and J. Xuan, “Bioinformatics and public access resources,” The Encyclopaedia of Sports Medicine – Genetic and Molecular Aspects of Sport Performance, The International Olympic Committee and Wiley-Blackwell (Claude Bouchard and Eric P. Hoffman, co-eds.), Oxford, England, Chapter 5, pp. 58-69, 2011.

R Clarke, AN Shajahan, Y Wang, JJ Tyson, RB Riggins, LM Weiner, WT Bauman, J Xuan, B Zhang, C Facey, H Aiyer, K Cook, FE Hickman, I Tavassoly, A Verdugo, C Chen, A Zwart, A Warri, and LA Hilakivi-Clarke, “Endoplasmic reticulum stress, the unfolded protein response, and gene network modeling in antiestrogen resistant breast cancer,” Horm Mol Biol Clin Invest, 5:35-44, 2011. [External Link]

 Year 2010

 L. Chen, J. Xuan*, R. B. Riggins, Y. Wang, E. P. Hoffman, and R. Clarke, “Multi-level support vector regression analysis to identify condition-specific regulatory networks,” Bioinformatics, 26(11):1416-1422, 2010. (IF=4.877) [External Link]

 C. Wang, J. Xuan*, H. Li, Y. Wang, M. Zhan, E. P. Hoffman and R. Clarke, “Knowledge-guided gene ranking by coordinative component analysis,” BMC Bioinformatics, 11:162, 2010. (IF=3.029) [External Link]

I.-M. Shih, L. Chen, C. Wang, J. Gu, B. Davidson, L. Cope, R. J. Kurman, J. Xuan, and T.-L. Wang, “Distinct DNA methylation profiles in ovarian serous neoplasms and their implications in ovarian carcinogenesis,” Am J Obstet Gynecol., 203(6):584, 2010. (IF=3.313)

G. Yu, Y. Feng, DJ Miller, J. Xuan, EP Hoffman, R Clarke, B Davidson, I-M Shih, and Y. Wang, “Matched gene selection and committee classifier for molecular classification of heterogeneous diseases,” Journal of Machine Learning Research, 11:2141-2167, 2010. (IF=1.956)

 Y. Zhang, J. Xuan, B. G. de los Reyes, R. Clarke, and H. W. Ressom, “Reconstruction of gene regulatory modules in cancer cell cycle by multi-source data integration,” PLoS ONE, 5(4): e10268, 2010. (IF=4.411)

J. Xuan*, Y. Wang, E. Hoffman, and R. Clarke, “Cross phenotype normalization of microarray data,” Frontiers in Bioscience, vol. E2, pp. 171-186, Jan. 2010. (IF=3.736; 2009 ISI)

Y. Tao, S.-H. B. Lo, M. T. Freedman, E. Makariou, and J. Xuan, “Multilevel Learning-based Segmentation of Ill-defined and Spiculated Masses in Mammograms,” Med. Phys., 37:5993, 2010. (IF=3.07) [External Link]

 Year 2009

Y. Zhang, J. Xuan, B. G. de los Reyes, R. Clarke, and H. W. Ressom, “Reverse engineering module networks by PSO-RNN hybrid modeling,” BMC Genomics,10(S1):S15, 2009. (IF=3.759) [External Link]

 L. Chen, J. Xuan*, R. B. Riggins, Y. Wang, E. P. Hoffman, and R. Clarke, “Identification of Condition-specific Regulatory Modules by Multi-level Motif and mRNA Expression Analysis,” Intl J. of Computational Biology and Drug Design, 2(1):1-20, 2009. [External Link]

L. Chen, J. Xuan*, C. Wang, I.-M. Shih, T.-L. Wang, Z. Zhang, R. Clarke, E. Hoffman and Y. Wang, “Biomarker identification by knowledge-driven multi-level ICA and motif analysis,” Intl J. Data Mining and Bioinformatics, vol. 3, no. 4, pp. 365-381, 2009.

B. Zhang, H. Li, R. B. Riggins, M. Zhan, J. Xuan, Z. Zhang, E. P. Hoffman, R. Clarke, and Y. Wang*, “Differential dependency network analysis to identify condition-specific topological changes in biological networks,” Bioinformatics, 25(4):526-532, 2009. (IF=4.926) [External Link]

R. Clarke, A. N. Shajahan, R. B. Riggins, Y. Cho, A. Crawford, J. Xuan, Y. Wang, A. Zwart, R. Nehra, and M. C. Liu, “Gene network signaling in hormone responsiveness modifies apoptosis and autophagy in breast cancer cells,” Journal of Steroid Biochemistry and Molecular Biology, 114(1-2):8-20, 2009.

 Year 2008

L. Chen, J. Xuan*, C. Wang, I.-M. Shih, Y. Wang, Z. Zhang, E. Hoffman, and R. Clarke, “Knowledge-guided multi-scale independent component analysis for biomarker identification,” BMC Bioinformatics, 9:416, 2008. (IF=3.781) [External Link]

C. Wang, J. Xuan*, L. Chen, P. Zhao, Y. Wang, R. Clarke, and E. P. Hoffman, “Motif-directed network component analysis for regulatory network inference,” BMC Bioinformatics, vol. 9, (S1):S21, 2008. (IF=3.781) [External Link] (

Y. Zhang, J. Xuan, B. G. de los Reyes, R. Clarke and H. W Ressom, “Identification of network motif-based transcription factor-target gene relationships by integrating multi-source biological data,” BMC Bioinformatics, 9:203, 2008. (IF=3.781) [External Link]

R. B. Riggins, J. P-J. Lan, U. Klimach, A. Zwart, L. R. Cavalli, B. R. Haddad, L. Chen, T. Gong, J. Xuan, S. P. Ethier, and R. Clarke, “ERRγ mediates Tamoxifen resistance in novel models of invasive lobular breast cancer,” Cancer Research, 68(21):8908-8917, 2008. (IF=7.514) [External Link]

Y. Zhu, H. Li, D. J. Miller, Z. Wang, J. Xuan, R. Clarke, E. P. Hoffman, and Y. Wang, “caBIG VISDA: modeling, visualization, and discovery for cluster analysis of genomic data,” BMC Bioinformatics, 9:383, 2008. (IF=3.781) [External Link]

Y. Zhu, Z. Wang, D. J. Miller, R. Clarke, J. Xuan, E. P. Hoffman, and Y. Wang*, “A ground truth based comparative study on clustering of gene expression data,” Frontiers in Bioscience, vol. 13, pp. 3839-3849, May 2008. (IF=3.308)

R. Clarke, H. W. Ressom, A. Wang, J. Xuan, M. C. Liu, E. A. Gehan, and Y. Wang, “The properties of high-dimensional data spaces: implications for exploring gene and protein expression data,” Nature Reviews Cancer, vol. 8, pp. 37-49, Jan. 2008. (IF=30.762) [External Link]

H. Li, J. Xuan, Y. Wang, and M. Zhan, “Inferring regulatory networks,” Frontiers in Bioscience, vol. 13, pp. 263-275, Jan. 2008. (IF=3.308)

H. W. Ressom, R. S. Varghese, Z. Zhang , J. Xuan, and R. Clarke, “Classification algorithms for phenotype prediction in genomics and proteomics,” Frontiers in Bioscience, vol. 13, pp. 691-708, Jan. 2008. (IF=3.308)

 Year 2007

T. Gong, J. Xuan*, C. Wang, H. Li, E. Hoffman, R. Clarke, and Y. Wang, “Gene module identification from microarray data using nonnegative independent component analysis,” Gene Regulation and Systems Biology, vol. 1, pp. 349-363, 2007.

J. Xuan*, U. Klimach, H. Zhao, Q. Chen, Y. Zou, and Y. Wang, “Improved diagnostics using polarization imaging and artificial neural networks,”International Journal of Biomedical Imaging, vol. 2007, Article ID 74143, 11 pages, 2007.

J. Xuan*, Y. Wang, R. Clarke, and E. Hoffman, “An iterative nonlinear regression method for microarray data normalization,” The Open Applied Informatics Journal, vol. 1, pp. 11-19, 2007.

J. Xuan*, Y. Wang, Y. Dong, Y. Feng, B. Wang, J. Khan, M. Bakay, Z. Wang, L. Pachman, S. Winokur, Y.-W. Chen, R. Clarke, and E. Hoffman, “Gene selection for multiclass prediction by weighted Fisher criterion,” EURASIP Journal of Bioinformatics and Systems Biology, Article ID 64628, 15 pages, 2007.

J. Wang, H. Li, Y. Zhu, M. Yousef, M. Nebozhyn, M. Showe, L. Showe, J. Xuan, R. Clarke, and Y. Wang, “VISDA: An open-source caBIG analytical tool for data clustering and beyond,” Bioinformatics, vol. 23, no. 15, pp. 2024-2027, 2007. (IF=5.039) [External Link]

 Year 2006

J. Xuan*, Y. Wang, M. T. Freedman, T. Adali, and P. G. Shields, “Non-rigid medical image registration by finite element deformable sheet-curve models,” International Journal of Biomedical Imaging, Article ID 73430, 9 pages, 2006.

M. Bakay, Z. Wang, G. Melcon, L. Schilta, J. Xuan, P. Zhao, V. Sartorelli, J. Seo, E. Pegoraro, C. Angelini, B. Shneiderman, D. Escolar, Y-W Chen, S. T. Winokur, L. M. Pachman, C. Fan, R. Mandler, Y. Nevo, E. Gordon, Y. Zhu, Y. Dong, Y. Wang, and E. P. Hoffman, “Nuclear envelope dystrophies show a transcriptional fingerprint suggesting disruption of Rb-MyoD pathways in muscle regeneration,” Brain, vol. 129, pp. 996-1013, 2006. (IF=7.617) [External Link]

Z. Wang, Y. Wang, J. Xuan, Y. Dong, M. Bakay, Y. Feng, R. Clarke, and E. P. Hoffman, “Optimized multilayer perceptrons for molecular classification and diagnosis using genomic data,” Bioinformatics, vol. 22, no. 6, pp. 755-761, 2006. (IF=4.894) [External Link]

Y. Wang, J. Xuan, R. Srikanchana, and P. L. Choyke, “Modeling and reconstruction of mixed functional and molecular patterns,” International Journal of Biomedical Imaging, Article ID 29707, 9 pages, 2006.

 Year 2005

J. Xuan*, Y. Wang, Q. Zheng, and T. Adali, “Discontinuity-embedded deformable models for surface reconstruction from range images,” IEEE Signal Processing Letters, vol. 12, no. 12, pp. 805-808, Dec. 2005. (IF=0.611)

 Year 2004

R. Srikanchana, J. Xuan, K. Huang, M. T. Freedman, C. Nguyen, and Y. Wang, “Non-rigid image registration by neural computation,” Journal of VLSI Signal Processing, vol. 37, pp. 237-246, June-July 2004.

 Year 2003

Z. Wang, Y. Wang, J. Lu, S-Y Kung, J. Zhang, R. Lee, J. Xuan, J. Khan, and R. Clarke, “Discriminatory Mining of Gene Expression Microarray Data,” Journal of VLSI Signal Processing, vol. 35, pp. 255-272, 2003.

 Year 2001

J. Xuan*, T. Adali, Y. Wang, W. Hayes, J. Lynch, M. T. Freedman, and S. K. Mun, “A Computerized Simulation System for Prostate Needle Biopsy,” Simulation and Gaming, vol. 32, no. 3, pp. 391-403, September 2001.

Y. Wang, T. Adali, J. Xuan, and Z. Szabo, “Magnetic Resonance Image Analysis by Information Theoretic Criteria and Stochastic Site Models,” IEEE Transactions on Information Technology in Biomedicine, vol. 5, no. 2, pp. 150-158, June 2001.

 Year 2000

J. Xuan*, T. Adali, Y. Wang, and E. Siegel, “Automatic Detection of Foreign Objects in Computed Radiography,” Journal of Biomedical Optics, vol. 5, no. 4, pp. 425-431, 2000.