- L. Chen "Statistical and computational methods for high throughput sequencing data analysis of alternative splicing". Statistics in Biosciences (in press)
- J. Zhang, C.-C.J. Kuo, L. Chen "VERSE: a Varying Effect Regression for Splicing Elements Discovery". Journal of Computational Biology (in press)
- T. Tong, L. Chen, H. Zhao "Improved mean estimation and its application to diagonal discriminant analysis". Bioinformatics 28(4):531-7 (2012)
- J.P. Masly, J.E. Dalton, S. Srivastava, L. Chen, M.N. Arbeitman "The Genetic Basis of Rapidly Evolving Male Genital Morphology in Drosophila". Genetics 189(1):357-74 (2011)
- J. Zhang, C.-C.J. Kuo, L. Chen "GC content around splice sites affects splicing through pre-mRNA secondary structures". BMC Genomics 12:90 (2011)
- S. Srivastava, L. Chen "A two-parameter generalized Poisson model to improve the analysis of RNA-seq data". Nucleic Acids Research 38(17):e170 (2010)
- L. Chen "A link between H3K27me3 mark and exon length in the gene promoters of pluripotent and differentiated cells". Bioinformatics 26(7):855-9 (2010)
- L. Chen "Global comparative analysis between nuclear and cytosolic transcriptomes reveals differential compartmentalization of alternative transcript isoforms". Nucleic acids research 38(4): 1086-1097 (2010)
- S. Srivastava, L. Chen "Model selection methods for genome wide association studies" Communications in information and systems 10(1): 39-52(2010)
- S. Srivastava, L. Chen "Comparison between the SSVS and the LASSO for genome wide association studies of rheumatoid arthritis" BMC Proceedings 3(Suppl 7):S21 (2009)
- L. Chen "Statistical and computational studies on alternative splicing" Handbook of Computational Statistics: Statistical Bioinformatics
- J. Liu, L. Chen, H. Zhao, D.F. Moore, Y. Lin, W.j. Shi "On calculating the probability of a set of orthologous sequences" Journal of Advances and Applications in Bioinformatics and Chemistry 2:37-48 (2009)
- S. Zheng, L. Chen "A hierarchical Bayesian model for comparing transcriptomes at the individual transcript isoform level" Nucleic Acids Research 37(10):e75 (2009)
- L. Chen*, S. Zheng "Studying alternative splicing regulatory networks through partial correlation analysis" Genome Biology 10(1): R3(2009)
- L. Chen*, T. Tong, H. Zhao* "Considering dependence among genes and markers for false discovery control in eQTL mapping" Bioinformatics 24(18): 2015-2022 (2008)
- L. Chen*, S. Zheng "Identify alternative splicing events based on position-specific evolutionary conservation" PLoS ONE 3(7): e2806 (2008) Supplemental data
- Y. Liu, N. Sun, J. Liu, L. Chen, M. McIntosh, L. Zheng, H. Zhao "Identifying stage-specific genes by combining information from two different types of oligonucleotide arrays" Methods of Microarray Data Analysis V 59-75 (2007)
- L. Chen, H. Zhao "Negative correlation between compositional symmetries and local recombination rates" Bioinformatics 21: 3951-3958 (2005).
- L. Chen, H. Zhao "Gene expression analysis reveals that histone deacetylation sites may serve as partitions of chromatin gene expression domains" BMC Genomics 6: 44. (2005)
- L. Chen, H. Zhao "Integrating mRNA decay information into co-regulation study" Journal of Computer Science and Technology 20: 434-438. (2005)
- L. Chen, N. Liu, S. Wang, C. Oh, N. J. Carriero, H. Zhao "Whole genome association studies on alcoholism comparing different phenotypes using single nucleotide polymorphisms and microsatellites" BMC Genetics 6 (Suppl 1): S130. (2005)
- N. Liu, L. Chen, S. Wang, C. Oh, H. Zhao "Comparison of single nucleotide polymorphisms and microsatellites in inference of population structure" BMC Genetics 6 (Suppl 1): S26. (2005)
- C. Oh, S. Wang, N. Liu, L. Chen, H. Zhao "A Bayesian genome screening of maximum number of drinks as an alcoholism phenotype with the new Haseman-Elston method" BMC Genetics 6 (Suppl 1): S116. (2005)
- S. Wang, S. Huang, N. Liu, L. Chen, C. Oh, H. Zhao "Whole-genome linkage analysis in mapping alcoholism genes using single nucleotide polymorphisms and microsatellites" BMC Genetics 6 (Suppl 1): S28. (2005)
- S. Huang, S. Wang, N. Liu, L. Chen, C. Oh, H. Zhao "Whole-genome association analysis to identify markers associated with recombination rates using single nucleotide polymorphisms and microsatellites" BMC Genetics 6 (Suppl 1): S51. (2005)
- Y. Lai, B. Wu, L. Chen, H. Zhao "Statistical method for identifying differential gene-gene coexpression patterns" Bioinformatics 20: 3146-3155. (2004)
- L. V. Sun, L. Chen, F. Greil, N. Negre, T. R. Li, G. Cavalli, H. Zhao, B. Van Steensel, K. P. White "Protein-DNA interaction mapping using genomic tiling path microarrays in Drosophila" Proceedings of the National Academy of Sciences 100: 9428-9433. (2003)