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    Submitted

  1. B Horstman and J Li. Detecting Epistasis Effect in Genome-Wide Association Studies Based on Ensemble Approaches. In revision.
  2. Y Chen and J Li. Generating Samples Involving Genetic and Non-genetic Interactions for Association Studies. Submitted.

    2010

  3. K Narayanan and J Li, MAVEN: a Visualization and Functional Analysis Tool for Genome-Wide Association Results. Accepted by Bioinformatics.
  4. X-L Yin and J Li, Conditional random field model for detecting copy number variation. Accepted by Journal of Bioinformatics and Computational Biology.
  5. X Li, Y Chen and J Li. Detecting Genome-wide Haplotype Polymorphism by Combined Use of Mendelian Constraints and Population Local Structure. Accepted by PSB'10.
  6. Y Chen, X Li and J Li. A New Approach for Family-based Haplotype Association Testing and Fine Mapping. Accepted by APBC'10.

    2009

  7. Y-S Pyon and J Li. Identifying Gene Signatures from Cancer Progression Data Using Ordinal Analysis. Accepted by BIBM'09. Final version will be available soon.
  8. S Erten, X Li, G Bebek, J Li and M Koyuturk. Phylogenetic analysis of modularity in protein interaction networks. BMC Bioinformatics, 10:333, 2009.
  9. X-L Yin and J Li, A general graphical framework for detecting copy number variation. Accepted by Comput Syst Bioinformatics Conf (CSB2009).
  10. Li, X. & Li, J. An almost linear time algorithm for a general haplotype solution on tree pedigrees with no recombination and its extensions. Journal of Bioinformatics and Computational Biology (JBCB), 7(3): 521-545, 2009.
  11. M. Hayes and J Li. A Linear-Time Algorithm for Analyzing Array CGH Data Using Log Ratio Triangulation, International Symposium on Bioinformatics Research and Applications (ISBRA), Lecture Notes in Bioinformatics (5542) 248-259, May 2009.
  12. K Narayanan and J Li, Visualization and Functional Analysis of Genome-Wide Association Results, Proceedings of Ohio Collaborative Conference in Bioinformatics (OCCBIO'09), 9-13, June 2009.
  13. X Li, S Erten, G Bebek, M Koyuturk and J Li, Comparative Analysis of Modularity in Biological Systems. Proceedings of Ohio Collaborative Conference in Bioinformatics (OCCBIO'09), 104-109, June 2009.

    2008

  14. X Li and Li, J. Efficient Haplotype Inference from Pedigrees with Missing Data using Linear Systems with Disjoint-Set Data Structures. CSB 2008.
  15. Li, J. Prioritize and Select SNPs for Association Studies with Multi-stage Designs. Journal of Computational Biology 15:241-57, 2008.
  16. Li, J and Y Chen. Generating samples for association studies based on HapMap data. BMC Bioinformatics 9:44, 2008.
  17. Li, J. and T. Jiang. A survey on haplotyping algorithms for tightly linked markers. Journal of Bioinformatics and Computational Biology (JBCB), 6: 241-259. 2008.
  18. Li, J A Novel Strategy for Detecting Multiple Loci in Genome-Wide Association Studies of Complex Diseases. Int. J. Bioinformatics Research and Applications, 4:150-63, 2008.

    2007

  19. Li, J. Marker selection for whole genome association studies with two-stage designs using dense SNPs. BMC Proceedings 1:S136.
  20. X. Li and J Li. Comparisons of haplotype inference from pedigree data and population data. BMC Proceedings 1:S55.
  21. Wu, S. and J. Li. Comparative Analysis of Gene-Coexpression Networks Across Four Plant Species. International Symposium on Bioinformatics Research and Applications (ISBRA), May 2007, Lecture Notes in Bioinformatics (4463) 615-626.
  22. She, GQ, GQ Shen, L Li, D Girelli, C Fan, JE Park, Q Xi, S Rao, J Li, Y Hu, O Olivieri, K Marchant, J Barnard, R Corrocher, R Elston, J Cassano, S Henderson, SL Hazen, EF Plow, EJ Topol & QK Wan. Variants in the LRP8 gene encoding the LDL receptor-related protein 8 confer risk of coronary artery disease and myocardial infarction. Am J Human Genet. 81:780-791, 2007.
  23. RP Igo, D Londono, K Miller, AR Parrado, SRE Quade, M Sinha, S Kim, S Won, J Li and KAB Goddard, Density-based Clustering in Haplotype Analysis for Association Mapping. BMC Proceedings 1:S27.
  24. Liu, Z, S.F. Yan, J. Walker, T. Zwingman, T. Jiang, J. Li and Y. Zhou. Study of gene function based on spatial co-expression in a high-resolution mouse brain atlas. BMC Systems Biology, 1:19 2007.

    2006

  25. Jing Li, Yingyao Zhou and Robert C. Elston. Haplotype-based Quantitative Trait Mapping Using a Clustering Algorithm. BMC Bioinformatics 2006, 7:258..

    2005

  26. Jing Li and Tao Jiang. Haplotype-based linkage disequilibrium mapping via direct data mining. Bioinformatics, 2005 21(24):4384-4393.
  27. Jing Li and Tao Jiang. Computing the Minimum Recombinant Haplotype Configuration from Incomplete Genotype Data on a Pedigree by Integer Linear Programming. Journal of Computational Biology, 12:719-739, 2005.

    2004

  28. Jing Li and Tao Jiang. An Exact Solution for Finding Minimum Recombinant Haplotype Configurations on Pedigrees with Missing Data by Integer Linear Programming. RECOMB04, 101-110.
  29. Jing Li and Tao Jiang. Haplotype Association Mapping by Density-Based Clustering in Case-Control Studies. Second RECOMB Satellite Workshop on Computational Methods for SNPs and Haplotypes, 47-57.

    2003

  30. Jing Li and Tao Jiang. Efficient Rule-Based Haplotyping Algorithm for Pedigree Data. In Proc. 7th Annual Conference on Research in Computational Molecular Biology (RECOMB03), 197-206.
  31. Jing Li and Tao Jiang. Efficient Inference of Haplotypes from Genotype on a Pedigree. Journal of Bioinformatics and Computational Biology(JBCB) 1(1):41-69.
  32. Li, J. et al Statistical Validation of Compound Structure-Selectivity Relationship using NCI Cancer Database. The International Conference on Mathematics and Engineering Techniques in Medicine and Biological Sciences (METMBS 03), 146-151..
  33. Koichiro Doi, Jing Li and Tao Jiang. Minimum Recombinant Haplotype Configuration on Tree Pedigrees. In Proc. 3rd Annual Workshop on Algorithms in Bioinformatics (WABI'03), 339-353.
  34. Bonizzoni, P., G. D. Vedova, R. Dondi and J. Li. The Haplotyping Problem: An Overview of Computational Models and Solutions. Journal of Computer Science and Technology (JCST) 18(6):675-688, 2003.
  35. Jing Li and Tao Jiang. PedPhase: Haplotype Inference for Pedigree Data. Submitted.

    2002

  36. Vedova, G. D,, T. Jiang, J. Li and J. Wen. Approximating Minimum Quartet Inconsistency. 14th Annual proceedings of ACM-SIAM SODA 2002
  37. Deng, H.-W. and J. Li. The effect of selective sampling on transmission disequilibrium test of a QTL. Genet Res 79(2):161-174, 2002
  38. Deng HW, Mahaney MC, Williams J, Li J, Conway T, Davies KM, Li JL, Deng HY, Lai DB, and Recker RR. Relevance of the genes for Bone Mass Variation to Susceptibility to Osteoporotic Fractures and its implications to gene search for complex human diseases. Genet Epidemiology, 22:12-25, 2002

    2001

  39. Deng, H.-W., J. Li and R. R. Recker. Effect of polygenes on Xiong's transmission disequilibrium test of a QTL in nuclear families with multiple children. Genet Epidemiology. 2001 Nov; 21(3): 243-65. PMID: 11668580.
  40. Deng, H.-W., J. Li and R. R. Recker. LOD score exclusion analyses for candidate genes using random population samples. Annals of Human Genetics, 2001 May; 65(3): 313-29. PMID: 11427187.
  41. Deng, HW, Lai DB, Conway T, Jing Li, Xu FH, Davies KM, Recker RR 2001 Characterization of genetic and life-style factors for determining variation of BMI, fat mass, percentage fat mass, and lean mass. J Clinical Densitometry 4: 353-362

    1999-2000

  42. Deng HW, Li J, Conway T, Lappe M, Deng XT, Davies KM, Li JL, Lai DB, Chen WM, M Johnson, FH Xu, HY Deng, and Recker RR. No evidence of linkage to BMD variation for the marker d11s987 on chromosome 11q12-13. J Bone and Miner Res 15: S214, 2000.
  43. Deng HW, Mahaney MC, Williams J, Li J, Conway T, Davies KM, Li JL, Deng HY, Lai DB, and Recker RR "Are genes important for bone mass variation relevant to risk of osteoporotic fractures?" J Bone and Miner Res 15: S162, 2000.

Posters

  1. X-L Yin and J Li, A general graphical framework for detecting copy number variation. RECOMB'09, Tucson, AZ. Also presented at Case Research Showcase, April, 2009.
  2. X Li and J Li. Zero recombinant haplotype inference with missing, RECOMB'08 Singapore.
  3. S. Wu and J. Li. Comparative Analysis of Gene-coexpression Networks across Species. RECOMB Satellite Meeting on Systems Biology. Dec 2006. San Diego, CA.
  4. Li, J. Prioritize and select SNPs for whole genome association studies with two-stage designs. HapMap conference, May 2006. Cambridge, MI.
  5. Li, J. Association mapping of quantitative traits using haplotypes (Poster) ISMB'05
  6. Li, J. and T. Jiang Efficient Haplotyping Algorithms for Pedigree Data. SIGCSE, Feb 2003 Reno, NV
  7. Li, J. and T. Jiang Experimental Study on Phylogenetic Reconstruction Algorithms. 3rd Annual Industry Day of College of Engineering of Univ. of California, Riverside 2001(Poster).
  8. Li, J. et al. Transmission disequilibrium mapping of QTL with polygenes background, The 31st MidWest Student BioMedical Research Forum 2000 (Poster)
  9. Li, J. et al. The effect of selected sampling on TDT of QTL. 1st Annual Great Plains States Society for Molecular Biology and Genetics 2000 (Poster)
  10. Jin-Long Li, Dong-Bing Lai, J. Li,Wei-Min Chen, Jian Li, Xu-Tao Deng, R. Recker and Hong-Wen Deng 2000 GENOTYPING DBMS-A database for managing the genotyping data. (1st Annual Great Plains States Society for Molecular Biology and Genetics; May19-20,2000 Poster)
    Updated 07/28/2009.