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Zheng Xia

Associate Professor

Calculated based on number of publications stored in Pure and citations from Scopus
20132023

Research activity per year

Search results

  • Article

    Supervised learning of high-confidence phenotypic subpopulations from single-cell data

    Ren, T., Chen, C., Danilov, A. V., Liu, S., Guan, X., Du, S., Wu, X., Sherman, M. H., Spellman, P. T., Coussens, L. M., Adey, A. C., Mills, G. B., Wu, L. Y. & Xia, Z., May 2023, In: Nature Machine Intelligence. 5, 5, p. 528-541 14 p.

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

    3 Scopus citations

  • TGFβ signaling is critical for maintenance of the tendon cell fate

    Tan, G. K., Pryce, B. A., Stabio, A., Brigande, J. V., Wang, C., Xia, Z., Tufa, S. F., Keene, D. R. & Schweitzer, R., Jan 2020, In: eLife. 9, e52695.

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

    Open Access
    55 Scopus citations

  • The cancer genome atlas pan-cancer analysis project

    Weinstein, J. N., Collisson, E. A., Mills, G. B., Shaw, K. R. M., Ozenberger, B. A., Ellrott, K., Sander, C., Stuart, J. M., Chang, K., Creighton, C. J., Davis, C., Donehower, L., Drummond, J., Wheeler, D., Ally, A., Balasundaram, M., Birol, I., Butterfield, Y. S. N., Chu, A., Chuah, E., & 316 othersChun, H. J. E., Dhalla, N., Guin, R., Hirst, M., Hirst, C., Holt, R. A., Jones, S. J. M., Lee, D., Li, H. I., Marra, M. A., Mayo, M., Moore, R. A., Mungall, A. J., Robertson, A. G., Schein, J. E., Sipahimalani, P., Tam, A., Thiessen, N., Varhol, R. J., Beroukhim, R., Bhatt, A. S., Brooks, A. N., Cherniack, A. D., Freeman, S. S., Gabriel, S. B., Helman, E., Jung, J., Meyerson, M., Ojesina, A. I., Pedamallu, C. S., Saksena, G., Schumacher, S. E., Tabak, B., Zack, T., Lander, E. S., Bristow, C. A., Hadjipanayis, A., Haseley, P., Kucherlapati, R., Lee, S., Lee, E., Luquette, L. J., Mahadeshwar, H. S., Pantazi, A., Parfenov, M., Park, P. J., Protopopov, A., Ren, X., Santoso, N., Seidman, J., Seth, S., Song, X., Tang, J., Xi, R., Xu, A. W., Yang, L., Zeng, D., Auman, J. T., Balu, S., Buda, E., Fan, C., Hoadley, K. A., Jones, C. D., Meng, S., Mieczkowski, P. A., Parker, J. S., Perou, C. M., Roach, J., Shi, Y., Silva, G. O., Tan, D., Veluvolu, U., Waring, S., Wilkerson, M. D., Wu, J., Zhao, W., Bodenheimer, T., Hayes, D. N., Hoyle, A. P., Jeffreys, S. R., Mose, L. E., Simons, J. V., Soloway, M. G., Baylin, S. B., Berman, B. P., Bootwalla, M. S., Danilova, L., Herman, J. G., Hinoue, T., Laird, P. W., Rhie, S. K., Shen, H., Triche, T., Weisenberger, D. J., Carter, S. L., Cibulskis, K., Chin, L., Zhang, J., Sougnez, C., Wang, M., Getz, G., Dinh, H., Doddapaneni, H. V., Gibbs, R., Gunaratne, P., Han, Y., Kalra, D., Kovar, C., Lewis, L., Morgan, M., Morton, D., Muzny, D., Reid, J., Xi, L., Cho, J., Dicara, D., Frazer, S., Gehlenborg, N., Heiman, D. I., Kim, J., Lawrence, M. S., Lin, P., Liu, Y., Noble, M. S., Stojanov, P., Voet, D., Zhang, H., Zou, L., Stewart, C., Bernard, B., Bressler, R., Eakin, A., Iype, L., Knijnenburg, T., Kramer, R., Kreisberg, R., Leinonen, K., Lin, J., Liu, Y., Miller, M., Reynolds, S. M., Rovira, H., Shmulevich, I., Thorsson, V., Yang, D., Zhang, W., Amin, S., Wu, C. J., Wu, C. C., Akbani, R., Aldape, K., Baggerly, K. A., Broom, B., Casasent, T. D., Cleland, J., Dodda, D., Edgerton, M., Han, L., Herbrich, S. M., Ju, Z., Kim, H., Lerner, S., Li, J., Liang, H., Liu, W., Lorenzi, P. L., Lu, Y., Melott, J., Nguyen, L., Su, X., Verhaak, R., Wang, W., Wong, A., Yang, Y., Yao, J., Yao, R., Yoshihara, K., Yuan, Y., Yung, A. K., Zhang, N., Zheng, S., Ryan, M., Kane, D. W., Aksoy, B. A., Ciriello, G., Dresdner, G., Gao, J., Gross, B., Jacobsen, A., Kahles, A., Ladanyi, M., Lee, W., Lehmann, K. V., Miller, M. L., Ramirez, R., Rätsch, G., Reva, B., Schultz, N., Senbabaoglu, Y., Shen, R., Sinha, R., Sumer, S. O., Sun, Y., Taylor, B. S., Weinhold, N., Fei, S., Spellman, P., Benz, C., Carlin, D., Cline, M., Craft, B., Goldman, M., Haussler, D., Ma, S., Ng, S., Paull, E., Radenbaugh, A., Salama, S., Sokolov, A., Swatloski, T., Uzunangelov, V., Waltman, P., Yau, C., Zhu, J., Hamilton, S. R., Abbott, S., Abbott, R., Dees, N. D., Delehaunty, K., Ding, L., Dooling, D. J., Eldred, J. M., Fronick, C. C., Fulton, R., Fulton, L. L., Kalicki-Veizer, J., Kanchi, K. L., Kandoth, C., Koboldt, D. C., Larson, D. E., Ley, T. J., Lin, L., Lu, C., Magrini, V. J., Mardis, E. R., McLellan, M. D., McMichael, J. F., Miller, C. A., O'Laughlin, M., Pohl, C., Schmidt, H., Smith, S. M., Walker, J., Wallis, J. W., Wendl, M. C., Wilson, R. K., Wylie, T., Zhang, Q., Burton, R., Jensen, M. A., Kahn, A., Pihl, T., Pot, D., Wan, Y., Levine, D. A., Black, A. D., Bowen, J., Frick, J., Gastier-Foster, J. M., Harper, H. A., Helsel, C., Leraas, K. M., Lichtenberg, T. M., McAllister, C., Ramirez, N. C., Sharpe, S., Wise, L., Zmuda, E., Chanock, S. J., Davidsen, T., Demchok, J. A., Eley, G., Felau, I., Sheth, M., Sofia, H., Staudt, L., Tarnuzzer, R., Wang, Z., Yang, L., Zhang, J., Omberg, L., Margolin, A., Raphael, B. J., Vandin, F., Wu, H. T., Leiserson, M. D. M., Benz, S. C., Vaske, C. J., Noushmehr, H., Wolf, D., Veer, L. V. T., Anastassiou, D., Yang, T. H. O., Lopez-Bigas, N., Gonzalez-Perez, A., Tamborero, D., Xia, Z., Li, W., Cho, D. Y., Przytycka, T., Hamilton, M., McGuire, S., Nelander, S., Johansson, P., Jörnsten, R. & Kling, T., Oct 1 2013, In: Nature genetics. 45, 10, p. 1113-1120 8 p.

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

    Open Access
    5074 Scopus citations

  • The genomic landscape of estrogen receptor α binding sites in mouse mammary gland

    Palaniappan, M., Nguyen, L., Grimm, S. L., Xi, Y., Xia, Z., Li, W. & Coarfa, C., Aug 1 2019, In: PloS one. 14, 8, e0220311.

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

    Open Access
    22 Scopus citations

  • The histone-H3K4-specific demethylase KDM5B Binds to its substrate and product through distinct PHD fingers

    Klein, B. J., Piao, L., Xi, Y., Rincon-Arano, H., Rothbart, S. B., Peng, D., Wen, H., Larson, C., Zhang, X., Zheng, X., Cortazar, M. A., Peña, P. V., Mangan, A., Bentley, D. L., Strahl, B. D., Groudine, M., Li, W., Shi, X. & Kutateladze, T. G., 2014, In: Cell Reports. 6, 2, p. 325-335 11 p.

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

    Open Access
    129 Scopus citations

  • Transcriptional profiling identifies an androgen receptor activity-low, stemness program associated with enzalutamide resistance

    Alumkal, J. J., Sun, D., Lu, E., Beer, T. M., Thomas, G. V., Latour, E., Aggarwal, R., Cetnar, J., Ryan, C. J., Tabatabaei, S., Bailey, S., Turina, C. B., Quigley, D. A., Guan, X., Foye, A., Youngren, J. F., Urrutia, J., Huangi, J., Weinstein, A. S., Friedl, V., & 11 othersRettig, M., Reiter, R. E., Spratt, D. E., Gleav, M., Evans, C. P., Stuart, J. M., Chen, Y., Feng, F. Y., Small, E. J., Witte, O. N. & Xia, Z., Jun 2 2020, In: Proceedings of the National Academy of Sciences of the United States of America. 117, 22, p. 12315-12323 9 p.

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

    Open Access
    72 Scopus citations

  • Transcriptional profiling of matched patient biopsies clarifies molecular determinants of enzalutamide-induced lineage plasticity

    Westbrook, T. C., Guan, X., Rodansky, E., Flores, D., Liu, C. J., Udager, A. M., Patel, R. A., Haffner, M. C., Hu, Y. M., Sun, D., Beer, T. M., Foye, A., Aggarwal, R., Quigley, D. A., Youngren, J. F., Ryan, C. J., Gleave, M., Wang, Y., Huang, J., Coleman, I., & 17 othersMorrissey, C., Nelson, P. S., Evans, C. P., Lara, P., Reiter, R. E., Witte, O., Rettig, M., Wong, C. K., Weinstein, A. S., Uzunangelov, V., Stuart, J. M., Thomas, G. V., Feng, F. Y., Small, E. J., Yates, J. A., Xia, Z. & Alumkal, J. J., Dec 2022, In: Nature communications. 13, 1, 5345.

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

    Open Access
    12 Scopus citations

  • Whole transcriptome sequencing reveals extensive unspliced mRNA in metastatic castration-resistant prostate cancer

    Sowalsky, A. G., Xia, Z., Wang, L., Zhao, H., Chen, S., Bubley, G. J., Balk, S. P. & Li, W., Jan 1 2015, In: Molecular Cancer Research. 13, 1, p. 98-106 9 p.

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

    Open Access
    88 Scopus citations

  • ZMYND11 links histone H3.3K36me3 to transcription elongation and tumour suppression

    Wen, H., Li, Y., Xi, Y., Jiang, S., Stratton, S., Peng, D., Tanaka, K., Ren, Y., Xia, Z., Wu, J., Li, B., Barton, M. C., Li, W., Li, H. & Shi, X., Apr 10 2014, In: Nature. 508, 7495, p. 263-268 6 p.

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

    Open Access
    238 Scopus citations
  • Comment/debate

    Author Correction: Supervised learning of high-confidence phenotypic subpopulations from single-cell data (Nature Machine Intelligence, (2023), 5, 5, (528-541), 10.1038/s42256-023-00656-y)

    Ren, T., Chen, C., Danilov, A. V., Liu, S., Guan, X., Du, S., Wu, X., Sherman, M. H., Spellman, P. T., Coussens, L. M., Adey, A. C., Mills, G. B., Wu, L. Y. & Xia, Z., Jun 2023, In: Nature Machine Intelligence. 5, 6, p. 676 1 p.

    Research output: Contribution to journal › Comment/debate › peer-review

    Open Access

  • Author Correction: CFIm25 links alternative polyadenylation to glioblastoma tumour suppression (Nature, (2014), 510, 7505, (412-416), 10.1038/nature13261)

    Masamha, C. P., Xia, Z., Yang, J., Albrecht, T. R., Li, M., Shyu, A. B., Li, W. & Wagner, E. J., Dec 15 2022, In: Nature. 612, 7940, p. E11

    Research output: Contribution to journal › Comment/debate › peer-review

    Open Access

  • Erratum: Correction: Human mutations in integrator complex subunits link transcriptome integrity to brain development (PLoS genetics (2017) 13 5 (e1006809))

    Oegema, R., Baillat, D., Schot, R., van Unen, L. M., Brooks, A., Kia, S. K., Hoogeboom, A. J. M., Xia, Z., Li, W., Cesaroni, M., Lequin, M. H., van Slegtenhorst, M., Dobyns, W. B., de Coo, I. F. M., van den Berg, D., Verheijen, F. W., Kremer, A., van der Spek, P. J., Heijsman, D., Wagner, E. J., & 2 othersFornerod, M. & Mancini, G. M. S., Aug 1 2017, In: PLoS genetics. 13, 8, p. e1006923

    Research output: Contribution to journal › Comment/debate › peer-review

    Open Access
    3 Scopus citations

  • Erratum: 3′ UTR lengthening as a novel mechanism in regulating cellular senescence (Genome Research (2018) 28 (285-294) DOI: 10.1101/gr.224451.117)

    Chen, M., Lyu, G., Han, M., Nie, H., Shen, T., Chen, W., Niu, Y., Song, Y., Li, X., Li, H., Chen, X., Wang, Z., Xia, Z., Li, W., Tian, X. L., Ding, C., Gu, J., Zheng, Y., Liu, X., Hu, J., & 3 othersWei, G., Tao, W. & Ni, T., Oct 2020, In: Genome Research. 30, 9, p. 1376 1 p.

    Research output: Contribution to journal › Comment/debate › peer-review

    Open Access