• 7680
    Citations
1997 …2024

Research activity per year

Personal profile

Research interests

Our laboratory studies the genetic determinants and pathogenic mechanisms of urogenital diseases with the goal of improving diagnostic and therapeutic strategies targeting these diseases. We have been creating and utilizing an array of experimental and disease models in mice to study the involvement of a number of pathways (such as the calcineurin/NFAT and Wnt signaling pathways) in urogenital diseases (such as Congenital anomalies of the kidney and the urinary tract (CAKUT), glomerular diseases, and prostate cancer). We use a multi-disciplinary approach, including cutting edge genome technologies, to study the mechanisms leading from defined genetic changes to the development of benign and malignant diseases in urogenital organs. While we take advantage of the in vivo systems for studying the genetic, physiological, and pathological aspects of these diseases, we also performed experiments in ex vivo and in vitro systems to study molecular interactions and cellular behaviors, using molecular biology, cell biology and biochemistry techniques. In addition to answering specific questions with clinical relevance, we are also keen on developing new genetic tools for the research community, such as new tissue-specific Cre transgenes and conditionally controllable transgenic mouse lines.

Mentoring

We are committed to building a diverse and inclusive workplace. The research environment in our lab is highly collaborative, intellectually stimulating, and enjoyable. 

Available to Mentor:

  • PhD/MSTP Students

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Collaborations and top research areas from the last five years

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  • Comprehensive proteogenomic characterization of rare kidney tumors

    Clinical Proteomic Tumor Analysis Consortium, Li, G. X., Chen, L., Hsiao, Y., Mannan, R., Zhang, Y., Luo, J., Petralia, F., Cho, H., Hosseini, N., Leprevost, F. D. V., Calinawan, A., Li, Y., Anand, S., Dagar, A., Geffen, Y., Kumar-Sinha, C., Chugh, S., Le, A. & Ponce, S. & 83 others, Guo, S., Zhang, C., Schnaubelt, M., Al Deen, N. N., Chen, F., Caravan, W., Houston, A., Hopkins, A., Newton, C. J., Wang, X., Polasky, D. A., Haynes, S., Yu, F., Jing, X., Chen, S., Robles, A. I., Mesri, M., Thiagarajan, M., An, E., Getz, G. A., Linehan, W. M., Hostetter, G., Jewell, S. D., Chan, D. W., Wang, P., Omenn, G. S., Mehra, R., Ricketts, C. J., Ding, L., Chinnaiyan, A. M., Cieslik, M. P., Dhanasekaran, S. M., Zhang, H., Nesvizhskii, A. I., Lazar, A. J., Paulovich, A. G., Antczak, A., Green, A., Ma'ayan, A., Pruetz, B., Zhang, B., Reva, B., Druker, B. J., Goldthwaite, C. A., Birger, C., Mani, D. R., Chesla, D., Fenyö, D., Schadt, E. E., Wilson, G., Kołodziejczak, I., John, I., Hafron, J., Vo, J., Zaalishvili, K., Ketchum, K. A., Rodland, K. D., Nyce, K., Wiznerowicz, M., Domagalski, M. J., Anurag, M., Borucki, M., Gillette, M. A., Birrer, M. J., Edwards, N. J., Vatanian, N., VanderKolk, P., McGarvey, P. B., Dhir, R., Thangudu, R. R., Crispen, R., Smith, R. D., Payne, S. H., Cottingham, S., Cai, S., Carr, S. A., Liu, T., Le, T., Ma, W., Zhang, X., Lu, Y., Shutack, Y. & Zhang, Z., May 21 2024, In: Cell Reports Medicine. 5, 5, 101547.

    Research output: Contribution to journalArticlepeer-review

    Open Access
    3 Scopus citations
  • DeST-OT: Alignment of Spatiotemporal Transcriptomics Data

    Halmos, P., Liu, X., Gold, J., Chen, F., Ding, L. & Raphael, B. J., 2024, Research in Computational Molecular Biology - 28th Annual International Conference, RECOMB 2024, Proceedings. Ma, J. (ed.). Springer Science and Business Media Deutschland GmbH, p. 434-437 4 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 14758 LNCS).

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    1 Scopus citations
  • Differential chromatin accessibility and transcriptional dynamics define breast cancer subtypes and their lineages

    Iglesia, M. D., Jayasinghe, R. G., Chen, S., Terekhanova, N. V., Herndon, J. M., Storrs, E., Karpova, A., Zhou, D. C., Naser Al Deen, N., Shinkle, A. T., Lu, R. J. H., Caravan, W., Houston, A., Zhao, Y., Sato, K., Lal, P., Street, C., Martins Rodrigues, F., Southard-Smith, A. N. & Targino da Costa, A. L. N. & 40 others, Zhu, H., Mo, C. K., Crowson, L., Fulton, R. S., Wyczalkowski, M. A., Fronick, C. C., Fulton, L. A., Sun, H., Davies, S. R., Appelbaum, E. L., Chasnoff, S. E., Carmody, M., Brooks, C., Liu, R., Wendl, M. C., Oh, C., Bender, D., Cruchaga, C., Harari, O., Bredemeyer, A., Lavine, K., Bose, R., Margenthaler, J., Held, J. M., Achilefu, S., Ademuyiwa, F., Aft, R., Ma, C., Colditz, G. A., Ju, T., Oh, S. T., Fitzpatrick, J., Hwang, E. S., Shoghi, K. I., Chheda, M. G., Veis, D. J., Chen, F., Fields, R. C., Gillanders, W. E. & Ding, L., Nov 2024, In: Nature Cancer. 5, 11, p. 1713-1736 24 p.

    Research output: Contribution to journalArticlepeer-review

    Open Access
    1 Scopus citations
  • Multi-scale signaling and tumor evolution in high-grade gliomas

    Philadelphia Coalition for a Cure & Clinical Proteomic Tumor Analysis Consortium, Jul 8 2024, In: Cancer Cell. 42, 7, p. 1217-1238.e19

    Research output: Contribution to journalArticlepeer-review

    Open Access
    2 Scopus citations
  • SenNet recommendations for detecting senescent cells in different tissues

    Suryadevara, V., Hudgins, A. D., Rajesh, A., Pappalardo, A., Karpova, A., Dey, A. K., Hertzel, A., Agudelo, A., Rocha, A., Soygur, B., Schilling, B., Carver, C. M., Aguayo-Mazzucato, C., Baker, D. J., Bernlohr, D. A., Jurk, D., Mangarova, D. B., Quardokus, E. M., Enninga, E. A. L. & Schmidt, E. L. & 59 others, Chen, F., Duncan, F. E., Cambuli, F., Kaur, G., Kuchel, G. A., Lee, G., Daldrup-Link, H. E., Martini, H., Phatnani, H., Al-Naggar, I. M., Rahman, I., Nie, J., Passos, J. F., Silverstein, J. C., Campisi, J., Wang, J., Iwasaki, K., Barbosa, K., Metis, K., Nernekli, K., Niedernhofer, L. J., Ding, L., Wang, L., Adams, L. C., Ruiyang, L., Doolittle, M. L., Teneche, M. G., Schafer, M. J., Xu, M., Hajipour, M., Boroumand, M., Basisty, N., Sloan, N., Slavov, N., Kuksenko, O., Robson, P., Gomez, P. T., Vasilikos, P., Adams, P. D., Carapeto, P., Zhu, Q., Ramasamy, R., Perez-Lorenzo, R., Fan, R., Dong, R., Montgomery, R. R., Shaikh, S., Vickovic, S., Yin, S., Kang, S., Suvakov, S., Khosla, S., Garovic, V. D., Menon, V., Xu, Y., Song, Y., Suh, Y., Dou, Z. & Neretti, N., Dec 2024, In: Nature Reviews Molecular Cell Biology. 25, 12, p. 1001-1023 23 p.

    Research output: Contribution to journalArticlepeer-review

    35 Scopus citations