簡介
職 務: 博士生導師
研究方向: 系統生物學
1990-1994 四川大學獲得生物工程學學士學位,
1994-1997中科院上海細胞所獲得碩士學位,
2001-2003衣阿華大學獲得計算機碩士學位,
1998-2003衣阿華大學獲得遺傳學博士學位
2003-2004衣阿華大學從事生物信息學博士後研究
2004-2005明尼蘇達大學從事生物信息學博士後研究
2005-2011 西北大學兒科系研究助理教授
2011－至今 中國科學院北京基因組研究所“百人計畫”研究員
專利:
1. xie, H. Selective Enrichment of CpG islands. (U.S Patent Application Serial No. 12/767,382, Pending)
主要研究領域：
DNA甲基化是直接發生在DNA分子上的一種共價修飾，它直接影響了基因組的構象，是基因表達的一種重要調控方式。高度甲基化的DNA往往被組蛋白緊密包裹而處於封閉狀態。去甲基化過程導致DNA雙鏈處於放鬆狀態，並可與轉錄因子結合從而促進基因的表達。正常細胞分化、組織發育以及疾病包括癌症發生髮展過程中常伴隨著DNA甲基化水平的改變。本項目組前期工作可以分以下四個方向：1）Alu重複序列甲基化分析技術的發展及套用；2）DNA甲基化模式分析法及套用；3）基因組及表觀基因組多態性研究； 4）系統生物學及大規模資料庫的整合和套用。
本項目組遠期目標是在增強對腫瘤發生髮展的理解基礎上能夠提供有效的預防，診斷及治療手段。在近期內，本項目組的主要研究方向集中於：1）高通量測序相關技術革新及套用； 2）計算生物學及生物信息學在組學（omics）領域的套用。
代表論著：
A. Andrade, M. Wang, M. d. F. Bonaldo, H. Xie* and M. B. Soares*. Submitted. Human genetic and epigenetic variations resulting from Alu retroposition. (*Corresponding authors)
Yadav, A. K., R. Ferrarese, A.P. Masillamani, H. Xie, M.S. Carro, F, Dai, C. Bredel, A. Alvarez, M. B. Soares, G. R. Harsh and M. Bredel. Submitted. Aberrant splicing of the tumor suppressor ANXA7 contributes to self-sufficiency of glioblastomas in oncogenic EGFR signaling.
Xie, H.*, M. Wang, A. Andrade, M. d. F. Bonaldo, V. Galat, K. Arndt, V. Rajaram, S. Goldman, T. Tomita, and M. B. Soares 2011. Genome-wide quantitative assessment of variation in DNA methylation patterns. Nucleic Acids Res. Jan 28. (*Corresponding author)
M. Wang, H. Xie, W. Stellpflug, V. Rajaram, M. d. F. Bonaldo, S. Goldman, T. Tomita, and M. B. Soares 2011. BTECH: A Platform to Integrate Genomic, Transcriptomic and Epigenomic Alterations in Brain Tumors. NeuroInformatics. Jan 6.
Xie, H.*, M. Wang, M. d. F. Bonaldo, V. Rajaram, W. Stellpflug, C. Smith, K. Arndt, S. Goldman, T. Tomita, and M. B. Soares*. 2010. Epigenomic analysis of Alu repeats in human ependymomas. Proc Natl Acad Sci U S A, 107(15): p. 6952-7. (*Corresponding author)
Hamm, C. A., J. W. Stevens, H. Xie, E. F. Vanin, J. A. Morcuende, H. Abdulkawy, S. T. Sredni, J. Bischof, D. Wang, S. Malchenko, M. d. F. Bonaldo, T. L. Casavant, and M. B. Soares. 2010. Microenvironment alters epigenetic and gene expression profiles in Swarm rat chondrosarcoma tumors. BMC Cancer, 10(1):471
Xie, H.*, M. Wang, F. Bonaldo Mde, C. Smith, V. Rajaram, S. Goldman, T. Tomita, and M. B. Soares*. 2009. High-throughput sequence-based epigenomic analysis of Alu repeats in human cerebellum. Nucleic Acids Res 37 (13):4331-4340. (*Corresponding author)
Hamm, C. A., H. Xie, F. Costa, E. F. Vanin, E. A. Seftor, S. T. Sredni, M. F. Bonaldo, M. J. C. Hendrix, and M. B. Soares. 2009. Global demethylation of rat chondrosarcoma cells after treatment with 5-Aza-2-deoxycytidine results in increased tumorigenicity. PLoS One, 4(12): p. e8340.
Xie, H., M. Wang, J. Bischof, F. Bonaldo Mde, and M. B. Soares. 2009. SNP-based prediction of the human germ cell methylation landscape. Genomics 93 (5):434-440.
Yadav, A. K., J. J. Renfrow, D. M. Scholtens, H. Xie, G. E. Duran, C. Bredel, H. Vogel, J. P. Chandler, A. Chakravarti, P. A. Robe, S. Das, A. C. Scheck, J. A. Kessler, M. B. Soares, B. I. Sikic, G. R. Harsh, and M. Bredel. 2009. Monosomy of chromosome 10 associated with dysregulation of epidermal growth factor signaling in glioblastomas. JAMA 302 (3):276-289.
Xie, H.*, M. Wang, Y. Tange, F. Bonaldo Mde, and M. B. Soares. 2009. A primer design algorithm for global analysis of CpG methylation. International Joint Conference on System Biology, Bioinformatics and Intelligent Computing (IJCBS). Proceedings of IEEE:126-130. (*Corresponding author)
Wang, M., H. Xie, S. Mi, and J. Chen. 2007. Recent patents on the identification and clinical application of microRNAs and target genes. Recent Pat DNA Gene Seq 1 (2):116-124.
Dvorak, C. M., M. Hardstedt, H. Xie, M. Wang, K. K. Papas, B. J. HERING, M. P. Murtaugh, and S. C. Fahrenkrug. 2007. Transcriptional profiling of stress response in cultured porcine islets. Biochem Biophys Res Commun 357 (1):118-125.
Ma, S., M. R. Kosorok, J. Huang, H. Xie, L. Manzella, and M. B. Soares. 2006. Robust semiparametric microarray normalization and significance analysis. Biometrics 62 (2):555-561.
Wang, D., J. Huang, H. Xie, L. Manzella, and M. B. Soares. 2005. A robust two-way semi-linear model for normalization of cDNA microarray data. BMC Bioinformatics 6:14.
Xie, H., S. Chen, J. Wang, and X. Ge. 1998. Cloning and sequencing of the variable gene fragments of LC-1 MCAB. Journal of cellular and molecular immunology 14 (2):89-92.
Xie, H., and X. Ge. 1997. Recent advance in antibody engineering with functional genomic fragment transplant. Annual report of shanghai immunology society:1-3.
Lu, Y., H. Xie, and X. Ge. 1996. Inhibition of tumor formation in vivo via increasing IL-2 level in microenvironment. Shanghai Journal of Immunology 5 (24-26).
