Jingyi Jessica Li

The PI, Assistant Professor in Statistics
Publications:

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.

Li, J.J. and Tong, X. (2016). Genomic applications of the Neyman–Pearson classification paradigm. Big Data Analytics in Genomics. Springer (New York).

Li, W.V.Chen, Y. and Li, J.J. (2016). TROM: A Testing-Based Method for Finding Transcriptomic Similarity of Biological Samples. Statistics in Biosciences.

Li, W.V.Razaee, Z.S. and Li, J.J. (2016). Epigenome overlap measure (EPOM) for comparing tissue/cell types based on chromatin states. BMC Genomics 17(Supp 1):10.

Li, J.J., Huang, H., Qian, M., and Zhang, X. (2015). Chapter 24: Transcriptome analysis using next-generation sequencing. Advanced Medical Statistics (2nd Edition).

Liu, Z., Dai, S., Bones, J., Ray, S., Cha, S., Karger, B. L., Li, J.J., Wilson, L., Hinckle, G., and Rossomando, A. (2015). A quantitative proteomic analysis of cellular responses to high glucose media in Chinese hamster ovary cells. Biotechnology Progress 31(4):1026-38.

Li, J.J. and Biggin, M.D. (2015). Statistics requantitates the central dogma. Science 347(6226):1066-1067. [UCLA News] [Interview at Significance 12(3):8]

Gerstein, M.B.*, Rozowsky, J.*, Yan, K.K.*, Wang, D.*, Cheng, C.*, Brown, J.B.*, Davis, C.A.*, Hillier, L*, Sisu, C.*, Li, J.J.*, Pei, B.*, Harmanci, A.O.*, Duff, M.O.*, Djebali, S.*, and 82 other authors from the modENCODE consortium (2014). Comparative analysis of the transcriptome across distant species. Nature 512(7515):445-448. [NIH news]

Boyle, A., Araya, C., Brdlik, C., Cayting, P., Cheng, C., Cheng, Y., Gardner, K., Hillier, L., Janette, J., Jiang, L., Kasper, D., Kawli, T., Kheradpour, P., Kundaje, A., Li, J.J., and 25 other authors from the modENCODE and ENCODE consortia (2014). Comparative analysis of regulatory information and circuits across distant species. Nature 512(7515):453-456. [NIH news]

Fisher, W.W., Li, J.J., Hammonds, A.S., Brown, J.B., Pfeiffer, B., Weiszmann, R., MacArthur, S., Thomas, S., Stamatoyannopoulos, J.A., Eisen, M.B., Bickel, P.B., Biggin, M.D., and Celniker, S.E. (2012). DNA regions bound at low occupancy by transcription factors do not drive patterned reporter gene expression in Drosophila. Proc Natl Acad Sci. USA 109(52):21330–21335.

Gao, Q., Ho, C., Jia, Y., Li, J.J., and Huang, H. (2012). Biclustering of linear patterns in gene expression data (CLiP). Journal of Computational Biology 19(6):619-631.

Li, J.J., Jiang, C.-R., Brown, B.J., Huang, H., and Bickel, P.J. (2011). Sparse linear modeling of RNA-seq data for isoform discovery and abundance estimation. Proc Natl Acad Sci. USA 108(50):19867-19872. [software]

Li, J., Li, J., and Chen, B. (2012). Oct4 was a novel target of Wnt signaling pathway. Molecular and Cellular Biochemistry 362:233–240.

MacArthur, S.*, Li, X.Y.*, Li, J.*, Brown, J.B., Chu, H.C., Zeng, L., Grondona, B.P., Hechmer, A., Simirenko, L., Keranen, S.V., Knowles, D.W., Stapleton, M., Bickel, P., Biggin, M.D., and Eisen, M.B. (2009). Developmental roles of 21 Drosophila transcription factors are determined by quantitative differences in binding to an overlapping set of thousands of genomic regions. Genome Biology 10:R80. [Faculty of 1000 recommendation]