Selected Publications

For a full list, check here.

Invited Reviews and Prospectives

Emerging information technologies for the next generation of elderly care.
Zhang T, Li X*. Interdisciplinary Nursing Research. 2022.


Methods

Colocalization of GWAS and eQTL signals detects target genes.
Hormozdiari F, van de Bunt M, Segrè AV, Li X, Joo JWJ, Bilow M, Sul JH, Sankararaman S, Pasaniuc B, Eskin E. American Journal of Human Genetics. 2016.

ForestPMPlot: a flexible tool for visualizing heterogeneity between studies in meta-analysis.
Kang EY, Park Y, Li X, Segrè AV, Han B, Eskin E. G3: Genes, Genomes, Genetics. 2016.


Applications

Human Genomics

Population-scale tissue transcriptomics maps long non-coding RNAs to complex disease.
de Goede OM*, Nachum DC, …, GTEx Consortium, …, Montgomery SB*. Cell. 2021.

The GTEx Consortium atlas of genetic regulatory effects across human tissues.
GTEx Consortium. Science. 2020. (Cover Story)

Genetic effects on gene expression across human tissues.
GTEx Consortium. Nature. 2017. (Cover Story)

Landscape of X chromosome inactivation across human tissues.
Tukiainen T, Villani AC, Yen A, Rivas MA, Marshall JL, …, GTEx Consortium, …, MacArthur DG*. Nature. 2017.

Cancer Genomics

RNA sequence analysis reveals macroscopic somatic clonal expansion across normal tissues.
Yizhak K, Aguet F, Kim J, Hess JM, Kübler K, Grimsby J, Frazer R, Zhang H, Haradhvala NJ, Rosebrock D, Livitz D, Li X, Arich-Landkof E, Shoresh N, Stewart C, Segrè AV, Branton PA, Polak P, Ardlie KG, Getz G*. Science. 2019.

Microbial Genomics and Infectious Diseases

Comparing genomic variant identification protocols for fungi to develop best practices..
Li X, Munoz JF, Gade L, Chow NA, …, Alastruey A, Litvintseva AP , Cuomo CA. Microbial Genomics. 2023. (Code)

Tracing the evolutionary history and global expansion of Candida auris using population genomic analyses.
Chow NA, Muñoz JF, Gade L, Berkow EL, Li X, Welsh RM, Forsberg K, Lockhart SR, Adam R, Alanio A, Alastruey-Izquierdo A, Althawadi S, Araúz AB, Ben-Ami R, Bharat A, Calvo B, Desnos-Ollivier M, Escandón P, Gardam D, Gunturu R, Heath CH, Kurzai O, Martin R, Litvintseva AP*, Cuomo CA*. MBio. 2020.

Plant Genomics

Genetic control of morphometric diversity in the maize shoot apical meristem
Leiboff S, Li X, Hu H, Todt N, Yang J, Li X, Yu X, Muehlbauer GJ, Timmermans MCP, Yu J, Schnable PS, Scanlon MJ
Nature Communication. 2015.

Substantial contribution of genetic variation in the expression of transcription factors to phenotypic variation revealed by eRD-GWAS
Lin H, Liu Q, Li X, Yang J, Liu S, Huang Y, Scanlon MJ, Nettleton D, Schnable PS
Genome Biology. 2017.


*: co-first authors or co-corresponding authors.
Bold are members of X-Lab.