Yang Li

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Yang Li

Assistant Professor of Neurological Surgery, Assistant Professor of Genetics

 https://orcid.org/0000-0001-6997-6018

    Willing to Mentor

    Available to Mentor:

    PhD/MSTP Students, Postdocs, Residents and Fellows

    • 7504
      Citations
    20122024

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    • 2023

      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 journal › Article › peer-review

      Open Access
      24 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 journal › Article › peer-review

      Open Access
      16 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 journal › Article › peer-review

      Open Access
      11 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 journal › Article › peer-review

      Open Access
      13 Scopus citations

    • Droplet-based single-cell joint profiling of histone modifications and transcriptomes

      Xie, Y., Zhu, C., Wang, Z., Tastemel, M., Chang, L., Li, Y. E. & Ren, B., Oct 2023, In: Nature Structural and Molecular Biology. 30, 10, p. 1428-1433 6 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      12 Scopus citations

    • Integrated analysis of single-cell chromatin state and transcriptome identified common vulnerability despite glioblastoma heterogeneity

      Raviram, R., Raman, A., Preissl, S., Ning, J., Wu, S., Koga, T., Zhang, K., Brennan, C. W., Zhu, C., Luebeck, J., Van Deynze, K., Han, J. Y., Hou, X., Ye, Z., Mischel, A. K., Li, Y. E., Fang, R., Baback, T., Mugford, J. & Han, C. Z. & 7 others, Glass, C. K., Barr, C. L., Mischel, P. S., Bafna, V., Escoubet, L., Ren, B. & Chen, C. C., May 16 2023, In: Proceedings of the National Academy of Sciences of the United States of America. 120, 20, e2210991120.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      9 Scopus citations

    • Robust enhancer-gene regulation identified by single-cell transcriptomes and epigenomes

      Xie, F., Armand, E. J., Yao, Z., Liu, H., Bartlett, A., Behrens, M. M., Li, Y. E., Lucero, J. D., Luo, C., Nery, J. R., Pinto-Duarte, A., Poirion, O. B., Preissl, S., Rivkin, A. C., Tasic, B., Zeng, H., Ren, B., Ecker, J. R. & Mukamel, E. A., Jul 12 2023, In: Cell Genomics. 3, 7, 100342.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      5 Scopus citations

    • Single-cell analysis of chromatin accessibility in the adult mouse brain

      Zu, S., Li, Y. E., Wang, K., Armand, E. J., Mamde, S., Amaral, M. L., Wang, Y., Chu, A., Xie, Y., Miller, M., Xu, J., Wang, Z., Zhang, K., Jia, B., Hou, X., Lin, L., Yang, Q., Lee, S., Li, B. & Kuan, S. & 17 others, Liu, H., Zhou, J., Pinto-Duarte, A., Lucero, J., Osteen, J., Nunn, M., Smith, K. A., Tasic, B., Yao, Z., Zeng, H., Wang, Z., Shang, J., Behrens, M. M., Ecker, J. R., Wang, A., Preissl, S. & Ren, B., Dec 14 2023, In: Nature. 624, 7991, p. 378-389 12 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      15 Scopus citations

    • Single-cell DNA methylation and 3D genome architecture in the human brain

      Tian, W., Zhou, J., Bartlett, A., Zeng, Q., Liu, H., Castanon, R. G., Kenworthy, M., Altshul, J., Valadon, C., Aldridge, A., Nery, J. R., Chen, H., Xu, J., Johnson, N. D., Lucero, J., Osteen, J. K., Emerson, N., Rink, J., Lee, J. & Li, Y. E. & 19 others, Siletti, K., Liem, M., Claffey, N., O’Connor, C., Yanny, A. M., Nyhus, J., Dee, N., Casper, T., Shapovalova, N., Hirschstein, D., Ding, S. L., Hodge, R., Levi, B. P., Dirk Keene, C., Linnarsson, S., Lein, E., Ren, B., Margarita Behrens, M. & Ecker, J. R., Oct 13 2023, In: Science. 382, 6667, eadf5357.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      28 Scopus citations

    • Single-cell DNA methylome and 3D multi-omic atlas of the adult mouse brain

      Liu, H., Zeng, Q., Zhou, J., Bartlett, A., Wang, B. A., Berube, P., Tian, W., Kenworthy, M., Altshul, J., Nery, J. R., Chen, H., Castanon, R. G., Zu, S., Li, Y. E., Lucero, J., Osteen, J. K., Pinto-Duarte, A., Lee, J., Rink, J. & Cho, S. & 14 others, Emerson, N., Nunn, M., O’Connor, C., Wu, Z., Stoica, I., Yao, Z., Smith, K. A., Tasic, B., Luo, C., Dixon, J. R., Zeng, H., Ren, B., Behrens, M. M. & Ecker, J. R., Dec 14 2023, In: Nature. 624, 7991, p. 366-377 12 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      19 Scopus citations
    • 2022

      Bridging between Mouse and Human Enhancer-Promoter Long-Range Interactions in Neural Stem Cells, to Understand Enhancer Function in Neurodevelopmental Disease

      D’Aurizio, R., Catona, O., Pitasi, M., Li, Y. E., Ren, B. & Nicolis, S. K., Jul 2022, In: International journal of molecular sciences. 23, 14, 7964.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      6 Scopus citations

    • Reconstruction of neocortex: Organelles, compartments, cells, circuits, and activity

      Turner, N. L., Macrina, T., Bae, J. A., Yang, R., Wilson, A. M., Schneider-Mizell, C., Lee, K., Lu, R., Wu, J., Bodor, A. L., Bleckert, A. A., Brittain, D., Froudarakis, E., Dorkenwald, S., Collman, F., Kemnitz, N., Ih, D., Silversmith, W. M., Zung, J. & Zlateski, A. & 25 others, Tartavull, I., Yu, S. C., Popovych, S., Mu, S., Wong, W., Jordan, C. S., Castro, M., Buchanan, J. A., Bumbarger, D. J., Takeno, M., Torres, R., Mahalingam, G., Elabbady, L., Li, Y., Cobos, E., Zhou, P., Suckow, S., Becker, L., Paninski, L., Polleux, F., Reimer, J., Tolias, A. S., Reid, R. C., da Costa, N. M. & Seung, H. S., Mar 17 2022, In: Cell. 185, 6, p. 1082-1100.e24

      Research output: Contribution to journal › Article › peer-review

      Open Access
      73 Scopus citations
    • 2021

      A multimodal cell census and atlas of the mammalian primary motor cortex

      BRAIN Initiative Cell Census Network (BICCN), 2021, In: Nature. 598, p. 86-102 17 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      275 Scopus citations

    • An atlas of gene regulatory elements in adult mouse cerebrum

      Li, Y. E., Preissl, S., Hou, X., Zhang, Z., Zhang, K., Qiu, Y., Poirion, O. B., Li, B., Chiou, J., Liu, H., Pinto-Duarte, A., Kubo, N., Yang, X., Fang, R., Wang, X., Han, J. Y., Lucero, J., Yan, Y., Miller, M. & Kuan, S. & 8 others, Gorkin, D., Gaulton, K. J., Shen, Y., Nunn, M., Mukamel, E. A., Behrens, M. M., Ecker, J. R. & Ren, B., Oct 7 2021, In: Nature. 598, 7879, p. 129-136 8 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      71 Scopus citations

    • A single-cell atlas of chromatin accessibility in the human genome

      Zhang, K., Hocker, J. D., Miller, M., Hou, X., Chiou, J., Poirion, O. B., Qiu, Y., Li, Y. E., Gaulton, K. J., Wang, A., Preissl, S. & Ren, B., Nov 24 2021, In: Cell. 184, 24, p. 5985-6001.e19

      Research output: Contribution to journal › Article › peer-review

      Open Access
      174 Scopus citations

    • A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex

      Yao, Z., Liu, H., Xie, F., Fischer, S., Adkins, R. S., Aldridge, A. I., Ament, S. A., Bartlett, A., Behrens, M. M., Van den Berge, K., Bertagnolli, D., de Bézieux, H. R., Biancalani, T., Booeshaghi, A. S., Bravo, H. C., Casper, T., Colantuoni, C., Crabtree, J., Creasy, H. & Crichton, K. & 63 others, Crow, M., Dee, N., Dougherty, E. L., Doyle, W. I., Dudoit, S., Fang, R., Felix, V., Fong, O., Giglio, M., Goldy, J., Hawrylycz, M., Herb, B. R., Hertzano, R., Hou, X., Hu, Q., Kancherla, J., Kroll, M., Lathia, K., Li, Y. E., Lucero, J. D., Luo, C., Mahurkar, A., McMillen, D., Nadaf, N. M., Nery, J. R., Nguyen, T. N., Niu, S. Y., Ntranos, V., Orvis, J., Osteen, J. K., Pham, T., Pinto-Duarte, A., Poirion, O., Preissl, S., Purdom, E., Rimorin, C., Risso, D., Rivkin, A. C., Smith, K., Street, K., Sulc, J., Svensson, V., Tieu, M., Torkelson, A., Tung, H., Vaishnav, E. D., Vanderburg, C. R., van Velthoven, C., Wang, X., White, O. R., Huang, Z. J., Kharchenko, P. V., Pachter, L., Ngai, J., Regev, A., Tasic, B., Welch, J. D., Gillis, J., Macosko, E. Z., Ren, B., Ecker, J. R., Zeng, H. & Mukamel, E. A., Oct 7 2021, In: Nature. 598, 7879, p. 103-110 8 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      155 Scopus citations

    • Cardiac cell type-specific gene regulatory programs and disease risk association

      Hocker, J. D., Poirion, O. B., Zhu, F., Buchanan, J., Zhang, K., Chiou, J., Wang, T. M., Zhang, Q., Hou, X., Li, Y. E., Zhang, Y., Farah, E. N., Wang, A., McCulloch, A. D., Gaulton, K. J., Ren, B., Chi, N. C. & Preissl, S., May 2021, In: Science Advances. 7, 20, eabf1444.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      61 Scopus citations

    • Comparative cellular analysis of motor cortex in human, marmoset and mouse

      Bakken, T. E., Jorstad, N. L., Hu, Q., Lake, B. B., Tian, W., Kalmbach, B. E., Crow, M., Hodge, R. D., Krienen, F. M., Sorensen, S. A., Eggermont, J., Yao, Z., Aevermann, B. D., Aldridge, A. I., Bartlett, A., Bertagnolli, D., Casper, T., Castanon, R. G., Crichton, K. & Daigle, T. L. & 86 others, Dalley, R., Dee, N., Dembrow, N., Diep, D., Ding, S. L., Dong, W., Fang, R., Fischer, S., Goldman, M., Goldy, J., Graybuck, L. T., Herb, B. R., Hou, X., Kancherla, J., Kroll, M., Lathia, K., van Lew, B., Li, Y. E., Liu, C. S., Liu, H., Lucero, J. D., Mahurkar, A., McMillen, D., Miller, J. A., Moussa, M., Nery, J. R., Nicovich, P. R., Niu, S. Y., Orvis, J., Osteen, J. K., Owen, S., Palmer, C. R., Pham, T., Plongthongkum, N., Poirion, O., Reed, N. M., Rimorin, C., Rivkin, A., Romanow, W. J., Sedeño-Cortés, A. E., Siletti, K., Somasundaram, S., Sulc, J., Tieu, M., Torkelson, A., Tung, H., Wang, X., Xie, F., Yanny, A. M., Zhang, R., Ament, S. A., Behrens, M. M., Bravo, H. C., Chun, J., Dobin, A., Gillis, J., Hertzano, R., Hof, P. R., Höllt, T., Horwitz, G. D., Keene, C. D., Kharchenko, P. V., Ko, A. L., Lelieveldt, B. P., Luo, C., Mukamel, E. A., Pinto-Duarte, A., Preissl, S., Regev, A., Ren, B., Scheuermann, R. H., Smith, K., Spain, W. J., White, O. R., Koch, C., Hawrylycz, M., Tasic, B., Macosko, E. Z., McCarroll, S. A., Ting, J. T., Zeng, H., Zhang, K., Feng, G., Ecker, J. R., Linnarsson, S. & Lein, E. S., Oct 7 2021, In: Nature. 598, 7879, p. 111-119 9 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      310 Scopus citations

    • DNA methylation atlas of the mouse brain at single-cell resolution

      Liu, H., Zhou, J., Tian, W., Luo, C., Bartlett, A., Aldridge, A., Lucero, J., Osteen, J. K., Nery, J. R., Chen, H., Rivkin, A., Castanon, R. G., Clock, B., Li, Y. E., Hou, X., Poirion, O. B., Preissl, S., Pinto-Duarte, A., O’Connor, C. & Boggeman, L. & 9 others, Fitzpatrick, C., Nunn, M., Mukamel, E. A., Zhang, Z., Callaway, E. M., Ren, B., Dixon, J. R., Behrens, M. M. & Ecker, J. R., Oct 7 2021, In: Nature. 598, 7879, p. 120-128 9 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      129 Scopus citations

    • Joint profiling of histone modifications and transcriptome in single cells from mouse brain

      Zhu, C., Zhang, Y., Li, Y. E., Lucero, J., Behrens, M. M. & Ren, B., Mar 2021, In: Nature Methods. 18, 3, p. 283-292 10 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      162 Scopus citations

    • Mediator complex proximal Tail subunit MED30 is critical for Mediator core stability and cardiomyocyte transcriptional network

      Tan, C., Zhu, S., Chen, Z., Liu, C., Li, Y. E., Zhu, M., Zhang, Z., Zhang, Z., Zhang, L., Gu, Y., Liang, Z., Boyer, T. G., Ouyang, K., Evans, S. M. & Fang, X., Sep 10 2021, In: PLoS genetics. 17, 9

      Research output: Contribution to journal › Article › peer-review

      Open Access
      6 Scopus citations

    • Structure and function of axo-axonic inhibition

      Schneider-Mizell, C. M., Bodor, A. L., Collman, F., Brittain, D., Bleckert, A. A., Dorkenwald, S., Turner, N. L., Macrina, T., Lee, K., Lu, R., Wu, J., Zhuang, J., Nandi, A., Hu, B., Buchanan, J., Takeno, M. M., Torres, R., Mahalingam, G., Bumbarger, D. J. & Li, Y. & 20 others, Chartrand, T., Kemnitz, N., Silversmith, W. M., Ih, D., Zung, J., Zlateski, A., Tartavull, I., Popovych, S., Wong, W., Castro, M., Jordan, C. S., Froudarakis, E., Becker, L., Suckow, S., Reimer, J., Tolias, A. S., Anastassiou, C. A., Seung, H. S., Reid, R. C. & Da Costa, N. M., Dec 2021, In: eLife. 10, e73783.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      31 Scopus citations

    • Survey of spiking in the mouse visual system reveals functional hierarchy

      Siegle, J. H., Jia, X., Durand, S., Gale, S., Bennett, C., Graddis, N., Heller, G., Ramirez, T. K., Choi, H., Luviano, J. A., Groblewski, P. A., Ahmed, R., Arkhipov, A., Bernard, A., Billeh, Y. N., Brown, D., Buice, M. A., Cain, N., Caldejon, S. & Casal, L. & 70 others, Cho, A., Chvilicek, M., Cox, T. C., Dai, K., Denman, D. J., de Vries, S. E. J., Dietzman, R., Esposito, L., Farrell, C., Feng, D., Galbraith, J., Garrett, M., Gelfand, E. C., Hancock, N., Harris, J. A., Howard, R., Hu, B., Hytnen, R., Iyer, R., Jessett, E., Johnson, K., Kato, I., Kiggins, J., Lambert, S., Lecoq, J., Ledochowitsch, P., Lee, J. H., Leon, A., Li, Y., Liang, E., Long, F., Mace, K., Melchior, J., Millman, D., Mollenkopf, T., Nayan, C., Ng, L., Ngo, K., Nguyen, T., Nicovich, P. R., North, K., Ocker, G. K., Ollerenshaw, D., Oliver, M., Pachitariu, M., Perkins, J., Reding, M., Reid, D., Robertson, M., Ronellenfitch, K., Seid, S., Slaughterbeck, C., Stoecklin, M., Sullivan, D., Sutton, B., Swapp, J., Thompson, C., Turner, K., Wakeman, W., Whitesell, J. D., Williams, D., Williford, A., Young, R., Zeng, H., Naylor, S., Phillips, J. W., Reid, R. C., Mihalas, S., Olsen, S. R. & Koch, C., Apr 1 2021, In: Nature. 592, 7852, p. 86-92 7 p.

      Research output: Contribution to journal › Article › peer-review

      237 Scopus citations

    • Systematic analysis of binding of transcription factors to noncoding variants

      Yan, J., Qiu, Y., Ribeiro dos Santos, A. M., Yin, Y., Li, Y. E., Vinckier, N., Nariai, N., Benaglio, P., Raman, A., Li, X., Fan, S., Chiou, J., Chen, F., Frazer, K. A., Gaulton, K. J., Sander, M., Taipale, J. & Ren, B., Mar 4 2021, In: Nature. 591, 7848, p. 147-151 5 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      80 Scopus citations
    • 2020

      The Allen Mouse Brain Common Coordinate Framework: A 3D Reference Atlas

      Wang, Q., Ding, S. L., Li, Y., Royall, J., Feng, D., Lesnar, P., Graddis, N., Naeemi, M., Facer, B., Ho, A., Dolbeare, T., Blanchard, B., Dee, N., Wakeman, W., Hirokawa, K. E., Szafer, A., Sunkin, S. M., Oh, S. W., Bernard, A. & Phillips, J. W. & 5 others, Hawrylycz, M., Koch, C., Zeng, H., Harris, J. A. & Ng, L., May 14 2020, In: Cell. 181, 4, p. 936-953.e20

      Research output: Contribution to journal › Article › peer-review

      Open Access
      607 Scopus citations

    • Tissue-specific transcription reprogramming promotes liver metastasis of colorectal cancer

      Teng, S., Li, Y. E., Yang, M., Qi, R., Huang, Y., Wang, Q., Zhang, Y., Chen, S., Li, S., Lin, K., Cao, Y., Ji, Q., Gu, Q., Cheng, Y., Chang, Z., Guo, W., Wang, P., Garcia-Bassets, I., Lu, Z. J. & Wang, D., Jan 1 2020, In: Cell Research. 30, 1, p. 34-49 16 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      66 Scopus citations
    • 2019

      Biological variation in the sizes, shapes and locations of visual cortical areas in the mouse

      Carol Thompson, Waters, J., Lee, E., Gaudreault, N., Griffin, F., Lecoq, J., Slaughterbeck, C., Sullivan, D., Farrell, C., Perkins, J., Reid, D., Feng, D., Graddis, N., Garrett, M., Li, Y., Long, F., Mochizuki, C., Roll, K. & Zhuang, J., May 2019, In: PloS one. 14, 5, e0213924.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      11 Scopus citations
    • 2017

      An extended retinotopic map of mouse cortex

      Zhuang, J., Ng, L., Williams, D., Valley, M., Li, Y., Garrett, M. & Waters, J., Jan 6 2017, In: eLife. 6, e18372.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      139 Scopus citations

    • Diverse Central Projection Patterns of Retinal Ganglion Cells

      Martersteck, E. M., Hirokawa, K. E., Evarts, M., Bernard, A., Duan, X., Li, Y., Ng, L., Oh, S. W., Ouellette, B., Royall, J. J., Stoecklin, M., Wang, Q., Zeng, H., Sanes, J. R. & Harris, J. A., Feb 21 2017, In: Cell Reports. 18, 8, p. 2058-2072 15 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      164 Scopus citations

    • Identification of high-confidence RNA regulatory elements by combinatorial classification of RNA-protein binding sites

      Li, Y. E., Xiao, M., Shi, B., Yang, Y. C. T., Wang, D., Wang, F., Marcia, M. & Lu, Z. J., Sep 8 2017, In: Genome biology. 18, 1, 169.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      33 Scopus citations

    • Organization of the connections between claustrum and cortex in the mouse

      Wang, Q., Ng, L., Harris, J. A., Feng, D., Li, Y., Royall, J. J., Oh, S. W., Bernard, A., Sunkin, S. M., Koch, C. & Zeng, H., Apr 15 2017, In: Journal of Comparative Neurology. 525, 6, p. 1317-1346 30 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      118 Scopus citations

    • Recurrently deregulated lncRNAs in hepatocellular carcinoma

      Yang, Y., Chen, L., Gu, J., Zhang, H., Yuan, J., Lian, Q., Lv, G., Wang, S., Wu, Y., Yang, Y. C. T., Wang, D., Liu, Y., Tang, J., Luo, G., Li, Y., Hu, L., Sun, X., Wang, D., Guo, M. & Xi, Q. & 4 others, Xi, J., Wang, H., Zhang, M. Q. & Lu, Z. J., Feb 13 2017, In: Nature communications. 8, 14421.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      273 Scopus citations
    • 2016

      RNAex: an RNA secondary structure prediction server enhanced by high-throughput structure-probing data

      Wu, Y., Qu, R., Huang, Y., Shi, B., Liu, M., Li, Y. & John Lu, Z., Jul 8 2016, In: Nucleic acids research. 44, W1, p. W294-W301

      Research output: Contribution to journal › Article › peer-review

      Open Access
      12 Scopus citations
    • 2015

      A common set of distinct features that characterize noncoding RNAs across multiple species

      Hu, L., Di, C., Kai, M., Yang, Y. C. T., Li, Y., Qiu, Y., Hu, X., Yip, K. Y., Zhang, M. Q. & Lu, Z. J., Sep 1 2015, In: Nucleic acids research. 43, 1, p. 104-114 11 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      18 Scopus citations

    • Amphibians crossing the Bering Land Bridge: Evidence from holarctic treefrogs (Hyla, Hylidae, Anura)

      Li, J. T., Wang, J. S., Nian, H. H., Litvinchuk, S. N., Wang, J., Li, Y., Rao, D. Q. & Klaus, S., Jun 1 2015, In: Molecular Phylogenetics and Evolution. 87, p. 80-90 11 p.

      Research output: Contribution to journal › Article › peer-review

      50 Scopus citations

    • CLIPdb: A CLIP-seq database for protein-RNA interactions

      Yang, Y. C. T., Di, C., Hu, B., Zhou, M., Liu, Y., Song, N., Li, Y., Umetsu, J. & Lu, J. J., Feb 5 2015, In: BMC genomics. 16, 1, 51.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      169 Scopus citations

    • Exploration and visualization of connectivity in the adult mouse brain

      Feng, D., Lau, C., Ng, L., Li, Y., Kuan, L., Sunkin, S. M., Dang, C. & Hawrylycz, M., Feb 1 2015, In: Methods. 73, p. 90-97 8 p.

      Research output: Contribution to journal › Article › peer-review

      14 Scopus citations

    • Neuroinformatics of the allen mouse brain connectivity atlas

      Kuan, L., Li, Y., Lau, C., Feng, D., Bernard, A., Sunkin, S. M., Zeng, H., Dang, C., Hawrylycz, M. & Ng, L., Feb 1 2015, In: Methods. 73, p. 4-17 14 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      139 Scopus citations
    • 2014

      A mesoscale connectome of the mouse brain

      Oh, S. W., Harris, J. A., Ng, L., Winslow, B., Cain, N., Mihalas, S., Wang, Q., Lau, C., Kuan, L., Henry, A. M., Mortrud, M. T., Ouellette, B., Nguyen, T. N., Sorensen, S. A., Slaughterbeck, C. R., Wakeman, W., Li, Y., Feng, D., Ho, A. & Nicholas, E. & 14 others, Hirokawa, K. E., Bohn, P., Joines, K. M., Peng, H., Hawrylycz, M. J., Phillips, J. W., Hohmann, J. G., Wohnoutka, P., Gerfen, C. R., Koch, C., Bernard, A., Dang, C., Jones, A. R. & Zeng, H., Apr 10 2014, In: Nature. 508, 7495, p. 207-214 8 p.

      Research output: Contribution to journal › Article › peer-review

      1694 Scopus citations
    • 2013

      Diversification of rhacophorid frogs provides evidence for accelerated faunal exchange between India and Eurasia during the Oligocene

      Li, J. T., Li, Y., Klaus, S., Rao, D. Q., Hillis, D. M. & Zhang, Y. P., Feb 26 2013, In: Proceedings of the National Academy of Sciences of the United States of America. 110, 9, p. 3441-3446 6 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      129 Scopus citations
    • 2012

      An anatomically comprehensive atlas of the adult human brain transcriptome

      Hawrylycz, M. J., Lein, E. S., Guillozet-Bongaarts, A. L., Shen, E. H., Ng, L., Miller, J. A., Van De Lagemaat, L. N., Smith, K. A., Ebbert, A., Riley, Z. L., Abajian, C., Beckmann, C. F., Bernard, A., Bertagnolli, D., Boe, A. F., Cartagena, P. M., Mallar Chakravarty, M., Chapin, M., Chong, J. & Dalley, R. A. & 47 others, Daly, B. D., Dang, C., Datta, S., Dee, N., Dolbeare, T. A., Faber, V., Feng, D., Fowler, D. R., Goldy, J., Gregor, B. W., Haradon, Z., Haynor, D. R., Hohmann, J. G., Horvath, S., Howard, R. E., Jeromin, A., Jochim, J. M., Kinnunen, M., Lau, C., Lazarz, E. T., Lee, C., Lemon, T. A., Li, L., Li, Y., Morris, J. A., Overly, C. C., Parker, P. D., Parry, S. E., Reding, M., Royall, J. J., Schulkin, J., Sequeira, P. A., Slaughterbeck, C. R., Smith, S. C., Sodt, A. J., Sunkin, S. M., Swanson, B. E., Vawter, M. P., Williams, D., Wohnoutka, P., Ronald Zielke, H., Geschwind, D. H., Hof, P. R., Smith, S. M., Koch, C., Grant, S. G. N. & Jones, A. R., Sep 20 2012, In: Nature. 489, 7416, p. 391-399 9 p.

      Research output: Contribution to journal › Article › peer-review

      Open Access
      1916 Scopus citations

    • Phylogenetic resolution and systematics of the Asian tree frogs, Rhacophorus (Rhacophoridae, Amphibia)

      Li, J. T., Li, Y., Murphy, R. W., Rao, D. Q. & Zhang, Y. P., Nov 2012, In: Zoologica Scripta. 41, 6, p. 557-570 14 p.

      Research output: Contribution to journal › Article › peer-review

      39 Scopus citations