Faculty Summaries
Xiaowei Chen, PhD
Xiaowei Chen, PhD
Assistant Professor
Office Phone: 215-214-4286
Fax: 215-728-2741
Office: W363
Differential allele-specific expression (DASE) and intra-individual tumor heterogeneity


  • Global DASE analysis to identify novel coding or no-coding genetic factors for breast cancer development.
  • Roles of breast cancer-associated lincRNAs in breast tumor progression and metastasis.
  • Intra-individual heterogeneity among pre-malignant/pre-invasive lesions in breast.
Description of research projects
Selected Publications

Fox Chase Programs

  1. Pape-Zambito, D., Jiang, Z., Wu, H., Devarajan, K., Slater, C.M., Cai, K.Q., Patchefsky, A., Daly, M.B., and Chen, X. (2014). Identifying a highly-aggressive DCIS subgroup by studying intra-individual DCIS heterogeneity among invasive breast cancer patients. PLoS One 9, e100488.
  2. Chen, X., and Anderson, J.J. (2014). Diet and the bone marrow niche for stem cell recruitment. J Bone Miner Res 29, 1041-1042.
  3. Paliwal, A., Temkin, A.M., Kerkel, K., Yale, A., Yotova, I., Drost, N., Lax, S., Nhan-Chang, C.L., Powell, C., Borczuk, A., Aviv, A., Wapner, R., Chen, X., Nagy, P.L., Schork, N., Do, C., Torkamani, A., and Tycko, B. (2013). Comparative anatomy of chromosomal domains with imprinted and non-imprinted allele-specific DNA methylation. PLoS Genet 9, e1003622.
  4. Jiang, Z., Zhou, Y., Devarajan, K., Slater, C.M., Daly, M.B., and Chen, X. (2012). Identifying putative breast cancer-associated long intergenic non-coding RNA loci by high density SNP array analysis. Front Genet 3, 299.
  5. Gao, C., Devarajan, K., Zhou, Y., Slater, C.M., Daly, M.B., and Chen, X. (2012). Identifying breast cancer risk loci by global differential allele-specific expression (DASE) analysis in mammary epithelial transcriptome. BMC Genomics 13, 570.
  6. Brewster, B.L., Rossiello, F., French, J.D., Edwards, S.L., Wong, M., Wronski, A., Whiley, P., Waddell, N., Chen, X., Bove, B., Kconfab, Hopper, J.L., John, E.M., Andrulis, I., Daly, M., Volorio, S., Bernard, L., Peissel, B., Manoukian, S., Barile, M., Pizzamiglio, S., Verderio, P., Spurdle, A.B., Radice, P., Godwin, A.K., Southey, M.C., Brown, M.A., and Peterlongo, P. (2012). Identification of fifteen novel germline variants in the BRCA1 3'UTR reveals a variant in a breast cancer case that introduces a functional miR-103 target site. Hum Mutat 33, 1665-1675.
  7. Chen, X., Weaver, J., Bove, B.A., Vanderveer, L.A., Weil, S.C., Miron, A., Daly, M.B., and Godwin, A.K. (2008). Allelic imbalance in BRCA1 and BRCA2 gene expression is associated with an increased breast cancer risk. Hum Mol Genet 17, 1336-1348.
  8. Chen, X., Truong, T.T., Weaver, J., Bove, B.A., Cattie, K., Armstrong, B.A., Daly, M.B., and Godwin, A.K. (2006). Intronic alterations in BRCA1 and BRCA2: effect on mRNA splicing fidelity and expression. Hum Mutat 27, 427-435.
  9. Chen, X., Arciero, C.A., Wang, C., Broccoli, D., and Godwin, A.K. (2006). BRCC36 is essential for ionizing radiation-induced BRCA1 phosphorylation and nuclear foci formation. Cancer Res 66, 5039-5046.
  10. Schilder, R.J., Sill, M.W., Chen, X., Darcy, K.M., Decesare, S.L., Lewandowski, G., Lee, R.B., Arciero, C.A., Wu, H., and Godwin, A.K. (2005). Phase II study of gefitinib in patients with relapsed or persistent ovarian or primary peritoneal carcinoma and evaluation of epidermal growth factor receptor mutations and immunohistochemical expression: a Gynecologic Oncology Group Study. Clin Cancer Res 11, 5539-5548.
  11. Guo, S., Hakimi, M.A., Baillat, D., Chen, X., Farber, M.J., Klein-Szanto, A.J., Cooch, N.S., Godwin, A.K., and Shiekhattar, R. (2005). Linking transcriptional elongation and messenger RNA export to metastatic breast cancers. Cancer Res 65, 3011-3016.
  12. Dong, Y., Hakimi, M.A., Chen, X., Kumaraswamy, E., Cooch, N.S., Godwin, A.K., and Shiekhattar, R. (2003). Regulation of BRCC, a holoenzyme complex containing BRCA1 and BRCA2, by a signalosome-like subunit and its role in DNA repair. Mol Cell 12, 1087-1099.
All publications