Personal profile

Research interests

Our research interests include developing innovative computational tools/methods and utilizing single-cell (epi)genomic techniques to gain a comprehensive understanding of gene regulation in mammalian models and human diseases, particularly in brain tumors and neuropsychiatric disorders. 

Available to Mentor:

  • PhD/MSTP Students
  • Postdocs
  • Residents and Fellows

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Collaborations and top research areas from the last five years

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  • Author Correction: Conserved and divergent gene regulatory programs of the mammalian neocortex (Nature, (2023), 624, 7991, (390-402), 10.1038/s41586-023-06819-6)

    Zemke, N. R., Armand, E. J., Wang, W., Lee, S., Zhou, J., Li, Y. E., Liu, H., Tian, W., Nery, J. R., Castanon, R. G., Bartlett, A., Osteen, J. K., Li, D., Zhuo, X., Xu, V., Chang, L., Dong, K., Indralingam, H. S., Rink, J. A. & Xie, Y. & 13 others, Miller, M., Krienen, F. M., Zhang, Q., Taskin, N., Ting, J., Feng, G., McCarroll, S. A., Callaway, E. M., Wang, T., Lein, E. S., Behrens, M. M., Ecker, J. R. & Ren, B., Jan 25 2024, In: Nature. 625, 7996, p. E26

    Research output: Contribution to journalComment/debate

    Open Access
  • A comparative atlas of single-cell chromatin accessibility in the human brain

    Li, Y. E., Preissl, S., Miller, M., Johnson, N. D., Wang, Z., Jiao, H., Zhu, C., Wang, Z., Xie, Y., Poirion, O., Kern, C., Pinto-Duarte, A., Tian, W., Siletti, K., Emerson, N., Osteen, J., Lucero, J., Lin, L., Yang, Q. & Zhu, Q. & 19 others, Zemke, N., Espinoza, S., Yanny, A. M., Nyhus, J., Dee, N., Casper, T., Shapovalova, N., Hirschstein, D., Hodge, R. D., Linnarsson, S., Bakken, T., Levi, B., Keene, C. D., Shang, J., Lein, E., Wang, A., Behrens, M. M., Ecker, J. R. & Ren, B., Oct 13 2023, In: Science. 382, 6667, adf7044.

    Research output: Contribution to journalArticlepeer-review

    Open Access
    9 Scopus citations
  • A deep population reference panel of tandem repeat variation

    Ziaei Jam, H., Li, Y., DeVito, R., Mousavi, N., Ma, N., Lujumba, I., Adam, Y., Maksimov, M., Huang, B., Dolzhenko, E., Qiu, Y., Kakembo, F. E., Joseph, H., Onyido, B., Adeyemi, J., Bakhtiari, M., Park, J., Javadzadeh, S., Jjingo, D. & Adebiyi, E. & 2 others, Bafna, V. & Gymrek, M., Dec 2023, In: Nature communications. 14, 1, 6711.

    Research output: Contribution to journalArticlepeer-review

    Open Access
    10 Scopus citations
  • A guide to the BRAIN Initiative Cell Census Network data ecosystem

    Hawrylycz, M., Martone, M. E., Ascoli, G. A., Bjaalie, J. G., Dong, H. W., Ghosh, S. S., Gillis, J., Hertzano, R., Haynor, D. R., Hof, P. R., Kim, Y., Lein, E., Liu, Y., Miller, J. A., Mitra, P. P., Mukamel, E., Ng, L., Osumi-Sutherland, D., Peng, H. & Ray, P. L. & 83 others, Sanchez, R., Regev, A., Ropelewski, A., Scheuermann, R. H., Tan, S. Z. K., Thompson, C. L., Tickle, T., Tilgner, H., Varghese, M., Wester, B., White, O., Zeng, H., Aevermann, B., Allemang, D., Ament, S., Athey, T. L., Baker, C., Baker, K. S., Baker, P. M., Bandrowski, A., Banerjee, S., Bishwakarma, P., Carr, A., Chen, M., Choudhury, R., Cool, J., Creasy, H., D'Orazi, F., Degatano, K., Dichter, B., Ding, S. L., Dolbeare, T., Ecker, J. R., Fang, R., Fillion-Robin, J. C., Fliss, T. P., Gee, J., Gillespie, T., Gouwens, N., Zhang, G. Q., Halchenko, Y. O., Harris, N. L., Herb, B. R., Hintiryan, H., Hood, G., Horvath, S., Huo, B., Jarecka, D., Jiang, S., Khajouei, F., Kiernan, E. A., Kir, H., Kruse, L., Lee, C., Lelieveldt, B., Li, Y., Liu, H., Liu, L., Markuhar, A., Mathews, J., Mathews, K. L., Mezias, C., Miller, M. I., Mollenkopf, T., Mufti, S., Mungall, C. J., Orvis, J., Puchades, M. A., Qu, L., Receveur, J. P., Ren, B., Sjoquist, N., Staats, Tward, D., van Velthoven, C. T. J., Wang, Q., Xie, F., Xu, H., Yao, Z., Yun, Z., Zhang, Y. R., Zheng, W. J. & Zingg, B., Jun 2023, In: PLoS biology. 21, 6 June, e3002133.

    Research output: Contribution to journalArticlepeer-review

    Open Access
    6 Scopus citations
  • Conserved and divergent gene regulatory programs of the mammalian neocortex

    Zemke, N. R., Armand, E. J., Wang, W., Lee, S., Zhou, J., Li, Y. E., Liu, H., Tian, W., Nery, J. R., Castanon, R. G., Bartlett, A., Osteen, J. K., Li, D., Zhuo, X., Xu, V., Chang, L., Dong, K., Indralingam, H. S., Rink, J. A. & Xie, Y. & 13 others, Miller, M., Krienen, F. M., Zhang, Q., Taskin, N., Ting, J., Feng, G., McCarroll, S. A., Callaway, E. M., Wang, T., Lein, E. S., Behrens, M. M., Ecker, J. R. & Ren, B., Dec 14 2023, In: Nature. 624, 7991, p. 390-402 13 p.

    Research output: Contribution to journalArticlepeer-review

    Open Access
    4 Scopus citations