An accurate and robust imputation for single cell RNA-seq data
26. Li, W.V. and Li, J.J. (2018). An accurate and robust imputation method scImpute for single-cell RNA-seq data. Nature Communications 9:997. [ UCLA NEWS ] [ SOFTWARE ]
Neyman-Pearson (NP) classification algorithms and NP receiver operating characteristics (NP-ROC)
25. Tong, X.*, Feng, Y.*, and Li, J.J. (2018). Neyman-Pearson classification algorithms and NP receiver operating characteristics. Science Advances 4(2):eaao1659. [ SOFTWARE ] [ VIDEO ] [ Francis X. Diebold’s Blog on NP Classification ]
Large-scale comparative epigenomics reveals hierarchical regulation of non-CG methylation in Arabidopsis
24. Zhang, Y., Harris, C.J., Liu, Q., Liu, W., Ausin, I., Long, Y., Xiao, L., Feng, L., Chen, X., Xie, Y., Chen, X., Zhan, L., Feng, S., Li, J.J., Wang, H., Zhai, J., and Jacobsen. S.E. (2018). Large-scale comparative epigenomics reveals hierarchical regulation of non-CG methylation in Arabidopsis. Proc Natl Acad Sci. USA 115(5):E1069-E1074.
Understanding patterns and correlates of daily pain using the sickle cell disease mobile application to record symptoms via technology (SMART)
23. Jonassaint, C.R., Kang, C., Abrams, D.M., Li, J.J., Mao, J., Jia, Y., Long, Q., Sanger, M., Jonassaint, J.C., De Castro, L., and Shah, N. (2018). Understanding patterns and correlates of daily pain using the sickle cell disease mobile application to record symptoms via technology (SMART). British Journal of Haematology 183(2):306-308.
Quantitating Translational Control: mRNA Abundance-Dependent and Independent Contributions and the mRNA Sequences That Specify Them
22. Li, J.J., Chew, G.-L., and Biggin, M.D. (2017). Quantitating translational control: mRNA abundancee-dependent and independent contributions and the mRNA sequences that specify them. Nucleic Acids Research 45(20):11821-11836. [ Highlight talk at RECOMB 2018 ]
Hybrid statistical and mechanistic mathematical model guides mobile health intervention for chronic pain
21. Clifton, S.M., Kang, C., Li, J.J., Long, Q., Shah, N., and Abrams, D.M. (2017). Hybrid statistical and mechanistic mathematical model guides mobile health intervention for chronic pain. Journal of Computational Biology 24(7):675-688.
Discussion of “Random-projection ensemble classification” by Cannings, T.I. and Samworth, R.J.
20. Tong, X. and Li, J.J. (2017). Discussion of “Random-projection ensemble classification” by Cannings, T.I. and Samworth, R.J. Journal of the Royal Statistical Society: Series B 79(4):1025-1026.
TROM: a testing-based method for finding transcriptomic similarity of biological samples
19. Li, W.V., Chen, Y., and Li, J.J. (2017). TROM: a testing-based method for finding transcriptomic similarity of biological samples. Statistics in Biosciences 9(1):105-136. [ SOFTWARE ]
Correspondence of D. melanogaster and C. elegans developmental stages revealed by alternative splicing characteristics of conserved exons
18. Gao, R. and Li, J.J. (2017). Correspondence of D. melanogaster and C. elegans developmental stages revealed by alternative splicing characteristics of conserved exons. BMC Genomics 18:234.
Large-scale mapping of mammalian transcriptomes identifies conserved genes associated with different cell states
17. Yang, Y.*, Yang, Y.T.*, Yuan, J., Lu, Z.J., and Li, J.J. (2017). Large-scale mapping of mammalian transcriptomes identifies conserved genes associated with different cell states. Nucleic Acids Research 45(4):1657-1672. [ DATA ]