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Comparative transcriptome in rhesus macaques and crab-eating macaques.
Mao, Y., Li, Y., Yang, Z., Xu, N., Zhang, S., Wang, X., ... & Mao, Y.* (2023).

The variation and evolution of complete human centromeres.
Logsdon, G.A., Rozanski, A.N., Ryabov, F., … Mao, Y. ... & Eichler, E. E.* (2023).

TAD Evolutionary and functional characterization reveals diversity in mammalian TAD boundary properties and function.

Okhovat, M.*, VanCampen, J., Lima, A.C., ... Mao, Y. ... Ahituv, N.* & Carbone, L.* (2023). bioRxiv

Structurally divergent and recurrently mutated regions of primate genomes.
Mao, Y., Harvey, W.T., Porubsky, D., Munson, K.M., Hoekzema, K., Lewis, A.P., Audano, P.A., Rozanski, A., Yang, X. & Zhang, S. (2023). bioRxiv


The complete and fully-phased diploid genome of a male Han Chinese.
Yang, C., Zhou, Y., Song, Y., ... Mao, Y. ... & Zhang, G.* (2023). Cell Research

Exploring the primate genome: Unraveling the mysteries of evolution and human disease.
He, Y.*, & Mao, Y.* (2023). The Innovation

Characterization of large-scale genomic differences in the first complete human genome.
Yang X., Wang X., Zou Y.,… & Mao, Y.* (2023). Genome Biology


Integrated gene analyses of de novo variants from 46,612 trios with autism and developmental disorders.
Wang, T.*, Kim, C. N., Bakken, T. E., Gillentine, M. A., Henning, B., Mao, Y., ... & Eichler, E. E.* (2022). Proceedings of the National Academy of Sciences

A complete, telomere-to-telomere human genome sequence presents new opportunities for evolutionary genomics.

Mao, Y.*, & Zhang, G. (2022). Nature Methods

Before SJTU

Pangenome-based genome inference allows efficient and accurate genotyping across a wide spectrum of variant classes.
Ebler, J., Ebert, P., Clarke, W. E., Rausch, T., Audano, P. A., Houwaart, T., Mao, Y., ... & Marschall, T. (2022). Nature Genetics

A high-quality bonobo genome refines the analysis of hominid evolution.
Mao, Y., Catacchio, C.R., Hillier, L.W., Porubsky, D., Li, R., Sulovari, A., ... & Eichler, E.E. (2021). Nature

The structure, function and evolution of a complete human chromosome 8.
Logsdon, G.A., Vollger, M.R., Hsieh, P., Mao, Y., Liskovykh, M.A., Koren, S., ... & Eichler, E.E. (2021). Nature

Evidence for opposing selective forces operating on human-specific duplicated TCAF genes in Neanderthals and humans.
Hsieh, P., Dang, V., Vollger, M.R., Mao, Y., Huang, T.H., Dishuck, P.C., ... & Eichler, E.E. (2021). Nature Communications

TREEasy: an automated workflow to infer gene trees, species trees, and phylogenetic networks from multilocus data.
Mao, Y.*, Hou, S., Shi, J., & Economo, E.P. (2020). Molecular Ecology Resources

Genomic insights into hybridization of reef corals.
Mao, Y.* (2020). Coral Reefs

Sequence diversity analyses of an improved rhesus macaque genome enhance its biomedical utility.
Warren, W.C., Harris, R.A., Haukness, M., Fiddes, I.T., Murali, S.C., Fernandes, J.,… Mao, Y. ... & Eichler, E.E. (2020). Science

An evolutionary driver of interspersed segmental duplications in primates.
Cantsilieris, S., Sunkin, S.M., Johnson, M.E., Anaclerio, F., Huddleston, J., Baker, C., … Mao, Y., ... & Eichler, E.E. (2020). Genome Biology

Single-cell strand sequencing of a macaque genome reveals multiple nested inversions and breakpoint reuse during primate evolution.
Maggiolini, F.A.M., Sanders, A.D., Shew, C.J., Sulovari, A., Mao, Y., Puig, M., ... & Antonacci, F. (2020). Genome Research

A likely ancient genome duplication in the speciose reef-building coral genus, Acropora.
Mao, Y.*, & Satoh, N. (2019). iScience

GenoDup Pipeline: a tool to detect genome duplication using the dS-based method.
Mao, Y.* (2019). PeerJ

The roles of introgression and climate change in the rise to dominance of Acropora corals.
Mao, Y.*, Economo, E.P., & Satoh, N. (2018). Current Biology

Non-random arrangement of synonymous codons in archaea coding sequences.
Zhang, Y., Shao, Z., Yang, L., Sun, X., Mao, Y., Chen, J. & Wang, B. (2013). Genomics

NOTE: *Corresponding author

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