EpigenDx - References

Solutions for Genomic
and Epigenomic Research

DNA Methylation Analysis:

1.        Kim HR, Hwang KA, Kim KC, Kang I.        Down-regulation of IL-7Ralpha expression in human T cells via DNA methylation
    J Immunol. 2007 May 1;178(9):5473-9

2.        Dejeux E, Audard V, Cavard C, Gut IG, Terris B, Tost J.         Rapid identification of promoter hypermethylation in
hepatocellular carcinoma by pyrosequencing of etiologically homogeneous sample pools          J Mol Diagn. 2007
Sep;9(4):510-20. Epub 2007 Aug 9

3.        Pasquali L, Bedeir A, Ringquist S, Styche A, Bhargava R, Trucco G.         Quantification of CpG island methylation in
progressive breast lesions from normal to invasive carcinoma         Cancer Lett. 2007 Nov 8;257(1):136-44. Epub 2007 Aug 15

4.        Marcos R.H. Estécio, Vazganush Gharibyan, Lanlan Shen, Ashraf E.K. Ibrahim, Ketan Doshi, Rong He, Jaroslav Jelinek,
Allen S. Yang, Pearlly S. Yan, Tim H-M. Huang, Eloiza H. Tajara, and Jean-Pierre J. Issa        LINE-1 Hypomethylation in Cancer Is
Highly Variable and Inversely Correlated with Microsatellite Instability        PLoS ONE. 2007; 2(5): e399. Published online 2007
May 2. doi: 10.1371/journal.pone.0000399. PMCID: 1851990

5.        Liu T, Zhang X, So CK, Wang S, Wang P, Yan L, Myers R, Chen Z, Patterson AP, Yang CS, Chen X        Regulation of
Cdx2 expression by promoter methylation, and effects of Cdx2 transfection on morphology and gene expression of human
esophageal epithelial.        Cell Carcinogenesis, 2007 Feb; 28(2): 488-96

6.        Brakensiek K, Wingen LU, Langer F, Kreipe H, Lehmann U        Quantitative high-resolution CpG island mapping with
Pyrosequencing reveals disease-specific methylation patterns of the CDKN2B gene in myelodysplastic syndrome and myeloid
leukemia        Clin Chem. 2007 Jan;53(1):17-23. Epub 2006 Nov 9

7.        England RPM, Pyro-QCpG:
       Quantitative analysis of methylation in multiple CpG sites by Pyrosequencing(R).
       Nature Method: 2005;2:1-2.

SNP Genotyping and Allele Quantification Analysis:

1.         Katsuhiko Nosho, Takako Kawasaki,Mutsuko Ohnishi, Yuko Suemoto, Gregory J. Kirkner, Dimity Zepf‡, Liying Yan,
Janina A. Longtine‡, Charles S. Fuchs, and Shuji Ogino   PIK3CA Mutation in Colorectal Cancer: Relationship with Genetic and
Epigenetic Alterations        Neoplasma: 2008;10(6): 534-541

2.        Ogino S, Kawasaki T, Brahmandam M, Yan L, Cantor M, Namgyal C, Mino-Kenudson M, Lauwers GY, Loda M, Fuchs
CS        Sensitive sequencing method for KRAS mutation detection by Pyrosequencing.        J Mol Diagn. 2005 Aug;7(3):413-21