Huidong Shi

Summary

Affiliation: University of Missouri
Country: USA

Publications

  1. ncbi request reprint CpG islands: their potential as biomarkers for cancer
    Huidong Shi
    University of Missouri Columbia, School of Medicine, Department of Pathology and Anatomical Sciences, Columbia, MO 65212, USA
    Expert Rev Mol Diagn 7:519-31. 2007
  2. pmc DNA hypermethylation accompanied by transcriptional repression in follicular lymphoma
    LYNDA B BENNETT
    Department of Pathology and Anatomical Sciences, University of Missouri Columbia School of Medicine, Columbia, MO 65212, USA
    Genes Chromosomes Cancer 48:828-41. 2009
  3. pmc Large-scale analysis of DNA methylation in chronic lymphocytic leukemia
    Farahnaz B Rahmatpanah
    Department of Pathology and Anatomical Sciences, Ellis Fischel Cancer Center, University of Missouri School of Medicine, Columbia, Missouri 65212, USA
    Epigenomics 1:39-61. 2009
  4. ncbi request reprint Discovery of novel epigenetic markers in non-Hodgkin's lymphoma
    Huidong Shi
    Department of Pathology and Anatomical Sciences, Ellis Fischel Cancer Center, University of Missouri School of Medicine, Columbia, MO 65203, USA
    Carcinogenesis 28:60-70. 2007
  5. ncbi request reprint Triple analysis of the cancer epigenome: an integrated microarray system for assessing gene expression, DNA methylation, and histone acetylation
    Huidong Shi
    Department of Pathology and Anatomical Sciences, Ellis Fischel Cancer Center, University of Missouri School of Medicine, Columbia 65203, USA
    Cancer Res 63:2164-71. 2003
  6. pmc Molecular detection of B-cell neoplasms by specific DNA methylation biomarkers
    Michael X Wang
    Department of Pathology and Anatomical Sciences, University of Missouri School of Medicine, Columbia, MO, USA
    Int J Clin Exp Pathol 3:265-79. 2010
  7. ncbi request reprint Relational analysis of CpG islands methylation and gene expression in human lymphomas using possibilistic C-means clustering and modified cluster fuzzy density
    Ozy Sjahputera
    Ellis Fischel Cancer Research Lab, Department of Pathology and Anatomical Sciences, University of Missouri School of Medicine, Columbia, MO 65212, USA
    IEEE/ACM Trans Comput Biol Bioinform 4:176-89. 2007
  8. ncbi request reprint Ultradeep bisulfite sequencing analysis of DNA methylation patterns in multiple gene promoters by 454 sequencing
    Kristen H Taylor
    Department of Pathology and Anatomical Sciences, Ellis Fischel Cancer Center, University of Missouri Columbia, Columbia, Missouri, USA
    Cancer Res 67:8511-8. 2007
  9. doi request reprint Label-free analysis of DNA methylation using optofluidic ring resonators
    Jonathan D Suter
    Department of Biological Engineering, University of Missouri, Columbia, MO 65211, USA
    Conf Proc IEEE Eng Med Biol Soc 2009:2760-2. 2009
  10. ncbi request reprint Oligonucleotide-based microarray for DNA methylation analysis: principles and applications
    Huidong Shi
    Department of Pathology and Anatomical Sciences, Ellis Fischel Cancer Center, University of Missouri School of Medicine, Columbia, Missouri 65203, USA
    J Cell Biochem 88:138-43. 2003

Collaborators

Detail Information

Publications28

  1. ncbi request reprint CpG islands: their potential as biomarkers for cancer
    Huidong Shi
    University of Missouri Columbia, School of Medicine, Department of Pathology and Anatomical Sciences, Columbia, MO 65212, USA
    Expert Rev Mol Diagn 7:519-31. 2007
    ..This perspective focuses on the current and future states of the use of DNA methylation biomarkers in disease diagnosis, prognosis and classification, with a particular emphasis on cancer...
  2. pmc DNA hypermethylation accompanied by transcriptional repression in follicular lymphoma
    LYNDA B BENNETT
    Department of Pathology and Anatomical Sciences, University of Missouri Columbia School of Medicine, Columbia, MO 65212, USA
    Genes Chromosomes Cancer 48:828-41. 2009
    ..Our results suggest that extensive hypermethylation in promoters of polycomb target genes is a characteristic of FL and that loss of expression of certain SUZ12 target genes could be functionally relevant for lymphomagenesis...
  3. pmc Large-scale analysis of DNA methylation in chronic lymphocytic leukemia
    Farahnaz B Rahmatpanah
    Department of Pathology and Anatomical Sciences, Ellis Fischel Cancer Center, University of Missouri School of Medicine, Columbia, Missouri 65212, USA
    Epigenomics 1:39-61. 2009
    ..B-cell chronic lymphocytic leukemia (CLL) is a heterogeneous malignancy that clinically ranges from indolent to rapidly progressive. CLL, like other cancers, can be affected by epigenetic alterations...
  4. ncbi request reprint Discovery of novel epigenetic markers in non-Hodgkin's lymphoma
    Huidong Shi
    Department of Pathology and Anatomical Sciences, Ellis Fischel Cancer Center, University of Missouri School of Medicine, Columbia, MO 65203, USA
    Carcinogenesis 28:60-70. 2007
    ..Thus, this CpG island microarray is a powerful discovery tool to identify novel methylated genes for further studies of their relevant molecular pathways in NHLs and identification of potential epigenetic biomarkers of disease...
  5. ncbi request reprint Triple analysis of the cancer epigenome: an integrated microarray system for assessing gene expression, DNA methylation, and histone acetylation
    Huidong Shi
    Department of Pathology and Anatomical Sciences, Ellis Fischel Cancer Center, University of Missouri School of Medicine, Columbia 65203, USA
    Cancer Res 63:2164-71. 2003
    ..We demonstrate proof of principle for using the triple microarray system in analyzing the dynamic relationship between transcription factors and promoter targets in cancer genomes...
  6. pmc Molecular detection of B-cell neoplasms by specific DNA methylation biomarkers
    Michael X Wang
    Department of Pathology and Anatomical Sciences, University of Missouri School of Medicine, Columbia, MO, USA
    Int J Clin Exp Pathol 3:265-79. 2010
    ..Thus, this epigenetic-based molecular method demonstrates its potential use in the diagnosis of B-cell neoplasia, in addition to traditional approach such as clinical features, morphology, immunophenotype, and genetic analysis...
  7. ncbi request reprint Relational analysis of CpG islands methylation and gene expression in human lymphomas using possibilistic C-means clustering and modified cluster fuzzy density
    Ozy Sjahputera
    Ellis Fischel Cancer Research Lab, Department of Pathology and Anatomical Sciences, University of Missouri School of Medicine, Columbia, MO 65212, USA
    IEEE/ACM Trans Comput Biol Bioinform 4:176-89. 2007
    ..Thus, these tools can be used as a means of high volume data exploration to better guide biological confirmation using independent molecular biology methods...
  8. ncbi request reprint Ultradeep bisulfite sequencing analysis of DNA methylation patterns in multiple gene promoters by 454 sequencing
    Kristen H Taylor
    Department of Pathology and Anatomical Sciences, Ellis Fischel Cancer Center, University of Missouri Columbia, Columbia, Missouri, USA
    Cancer Res 67:8511-8. 2007
    ..This new generation of methylome sequencing will provide digital profiles of aberrant DNA methylation for individual human cancers and offers a robust method for the epigenetic classification of tumor subtypes...
  9. doi request reprint Label-free analysis of DNA methylation using optofluidic ring resonators
    Jonathan D Suter
    Department of Biological Engineering, University of Missouri, Columbia, MO 65211, USA
    Conf Proc IEEE Eng Med Biol Soc 2009:2760-2. 2009
    ..Such behavior is suspected to be strongly related to the occurrence of several types of cancers. The OFRR is demonstrated as a tool both for detecting DNA hybridization and methylated cytosines residues...
  10. ncbi request reprint Oligonucleotide-based microarray for DNA methylation analysis: principles and applications
    Huidong Shi
    Department of Pathology and Anatomical Sciences, Ellis Fischel Cancer Center, University of Missouri School of Medicine, Columbia, Missouri 65203, USA
    J Cell Biochem 88:138-43. 2003
    ..This novel tool, therefore, holds promise to monitor the outcome of various epigenetic therapies on cancer patients...
  11. ncbi request reprint Large-scale CpG methylation analysis identifies novel candidate genes and reveals methylation hotspots in acute lymphoblastic leukemia
    Kristen H Taylor
    Department of Pathology and Anatomical Sciences, Ellis Fischel Cancer Center, University of Missouri Columbia School of Medicine, Columbia, Missouri 65212, USA
    Cancer Res 67:2617-25. 2007
    ..This study sets the stage for acquiring a better biological understanding of ALL and for the identification of epigenetic biomarkers useful for differential diagnosis, therapeutic monitoring, and the detection of leukemic relapse...
  12. ncbi request reprint The androgen receptor gene is preferentially hypermethylated in follicular non-Hodgkin's lymphomas
    Hongyu Yang
    Department of Pathology and Anatomical Sciences, Fischel Cancer Center, University of Missouri School of Medicine, 115 Business Loop 70 West, Columbia, MO 65203, USA
    Clin Cancer Res 9:4034-42. 2003
    ..Full re-expression of AR requires both demethylation and reacetylation, a finding that may affect treatment decisions...
  13. ncbi request reprint Applications of CpG island microarrays for high-throughput analysis of DNA methylation
    Pearlly S Yan
    Department of Pathology and Anatomical Sciences, Ellis Fischel Cancer Center, University of Missouri, Columbia 65203, USA
    J Nutr 132:2430S-2434S. 2002
    ..Herein, we outline the DMH protocol and illustrate its utility and the validation approaches used in analyzing the hypermethylation profile of breast tumor and normal samples...
  14. ncbi request reprint Methylation microarray analysis of late-stage ovarian carcinomas distinguishes progression-free survival in patients and identifies candidate epigenetic markers
    Susan H Wei
    Department of Pathology and Anatomical Sciences, Ellis Fischel Cancer Center, University of Missouri, Columbia, Missouri 65203, USA
    Clin Cancer Res 8:2246-52. 2002
    ..The purpose of this study was to profile methylation alterations of CpG islands in ovarian tumors and to identify candidate markers for diagnosis and prognosis of the disease...
  15. ncbi request reprint PRIMEGENS-v2: genome-wide primer design for analyzing DNA methylation patterns of CpG islands
    Gyan P Srivastava
    Computer Science Department and Christopher S Bond Life Sciences Center, University of Missouri, Columbia, MO, USA
    Bioinformatics 24:1837-42. 2008
    ..We have developed a method, which fulfills this requirement and conduct primer design for sequences including regions of given promoter CpG islands...
  16. ncbi request reprint Differential DNA methylation of gene promoters in small B-cell lymphomas
    Juyuan Guo
    Department of Pathology and Anatomical Sciences, University of Missouri School of Medicine, Columbia 65203, USA
    Am J Clin Pathol 124:430-9. 2005
    ..This study illustrates nonrandom epigenetic alterations in SBCLs that seem to preferentially involve lymphomas of germinal center derivation...
  17. doi request reprint Aberrant epigenetic gene regulation in lymphoid malignancies
    Kristen H Taylor
    Department of Pathology and Anatomical Sciences, University of Missouri, Columbia, MO 65212, USA
    Semin Hematol 50:38-47. 2013
    ..This review discusses the impact of known epigenetic aberration on the regulation of gene expression in NHL and provides insight into the spatial conformation of the genome (DNA packaging) in acute lymphoblastic leukemia...
  18. ncbi request reprint Label-free quantitative DNA detection using the liquid core optical ring resonator
    Jonathan D Suter
    Department of Biological Engineering, 240D Bond Life Sciences Center, University of Missouri Columbia, Columbia, MO 65211, USA
    Biosens Bioelectron 23:1003-9. 2008
    ..Our work will provide important insight into the light-DNA interaction at the ring resonator surface and lay a foundation for future LCORR-based DNA label-free microarray development...
  19. ncbi request reprint Expressed CpG island sequence tag microarray for dual screening of DNA hypermethylation and gene silencing in cancer cells
    Huidong Shi
    Department of Pathology and Anatomical Sciences, Ellis Fischel Cancer Center, University of Missouri School of Medicine, 115 Business Loop I 70 West, Columbia, MO 65203, USA
    Cancer Res 62:3214-20. 2002
    ..Thus, this study shows that the ECIST microarray can be used to differentiate the primary and secondary causes of demethylation and provides an effective tool to elucidate the mechanisms of aberrant DNA methylation in cancer...
  20. pmc Soy isoflavones have an antiestrogenic effect and alter mammary promoter hypermethylation in healthy premenopausal women
    Wenyi Qin
    Department of Surgery, University of Missouri School of Medicine Columbia, One Hospital Drive, Columbia, MO 65212, USA
    Nutr Cancer 61:238-44. 2009
    ..Isoflavones induced dose-specific changes in RARbeta2 and CCND2 gene methylation, which correlated with genistein levels. This work provides novel insights into estrogenic and methylation effects of dietary isoflavones...
  21. pmc Isolation and characterization of a population of stem-like progenitor cells from an atypical meningioma
    Prakash Rath
    Division of Biological Sciences, College of Arts and Science, University of Missouri, Columbia, MO 65211, USA
    Exp Mol Pathol 90:179-88. 2011
    ..This meningioma model may be used to study the cell hierarchy of meningioma tumorogenesis and provide increased understanding of malignant progression...
  22. pmc Developmental cues and persistent neurogenic potential within an in vitro neural niche
    Chris Pierret
    Division of Biological Sciences, University of Missouri, Columbia, MO 65211, USA
    BMC Dev Biol 10:5. 2010
    ..The components of this niche maintain the NSCs and their definitive properties, including the ability to self-renew and multipotency (neuronal and glial differentiation)...
  23. pmc Methylation target array for rapid analysis of CpG island hypermethylation in multiple tissue genomes
    Chuan Mu Chen
    Department of Life Sciences, National Chung Hsing University, Taiwan, Republic of China
    Am J Pathol 163:37-45. 2003
    ..This novel approach thus provides an additional avenue for assessing clinicopathological consequences of DNA hypermethylation in breast cancer...
  24. pmc Methylation-specific oligonucleotide microarray: a new potential for high-throughput methylation analysis
    Raad S Gitan
    Department of Pathology, Ellis Fischel Cancer Center, University of Missouri School of Medicine, Columbia 65203, USA
    Genome Res 12:158-64. 2002
    ..001). This proof-of-principle study shows that MSO microarray is a promising technique for mapping methylation changes in multiple CpG island loci and for generating epigenetic profiles in cancer...
  25. ncbi request reprint Differential distribution of DNA methylation within the RASSF1A CpG island in breast cancer
    Pearlly S Yan
    Human Cancer Genetics Program, Department of Molecular Virology, Immunology and Medical Genetics, Comprehensive Cancer Center, The Ohio State University, 420 West 12th Avenue, Columbus, OH 43210, USA
    Cancer Res 63:6178-86. 2003
    ....
  26. ncbi request reprint Epigenetic hypothesis tests for methylation and acetylation in a triple microarray system
    Lang Li
    Division of Biostatistics, Department of Medicine, Indiana University, Indianapolis, IN 46022, USA
    J Comput Biol 12:370-90. 2005
    ..001). Further simulations suggest that even if the constant variance and normality assumptions do not hold, the power of those two tests is robust...
  27. ncbi request reprint Dual therapeutic utility of proteasome modulating agents for pharmaco-gene therapy of the cystic fibrosis airway
    Liang N Zhang
    Department of Anatomy and Cell Biology, University of Iowa College of Medicine, Iowa City, IA 52242, USA
    Mol Ther 10:990-1002. 2004
    ..The identification of such compounds mark a new area for drug development, not only for CF, but also for other gene therapy disease targets...
  28. ncbi request reprint Double RNA interference of DNMT3b and DNMT1 enhances DNA demethylation and gene reactivation
    Yu Wei Leu
    Division of Human Cancer Genetics, Department of Molecular Virology, Immunology and Medical Genetics, Comprehensive Cancer Center, The Ohio State University, 420 West 12th Avenue, Columbus, OH 43210, USA
    Cancer Res 63:6110-5. 2003
    ..This study also shows that siRNA is a powerful tool for interrogating the mechanisms of DNA methylation in normal and pathological genomes...

Research Grants4

  1. Integrated Genetic and Epigenetic Biomarkers for Molecular Epidemiology
    Huidong Shi; Fiscal Year: 2007
    ..The systematic approach would set the stage to use the data acquired in this RO3 application as preliminary data for a larger controlled epidemiology study. ..
  2. Epigenetic Targeting in Non-Hodgkin's Lymphoma
    Huidong Shi; Fiscal Year: 2007
    ..This systematic approach will provide a powerful tool for future mechanistic studies as well as cancer diagnosis. ..