@article {148,
	title = {Epigenome analyses using BAC microarrays identify evolutionary conservation of tissue-specific methylation of SHANK3.},
	journal = {Nat Genet},
	volume = {37},
	year = {2005},
	month = {2005 Jun},
	pages = {645-51},
	abstract = {<p>CpG islands are present in one-half of all human and mouse genes and typically overlap with promoters or exons. We developed a method for high-resolution analysis of the methylation status of CpG islands genome-wide, using arrays of BAC clones and the methylation-sensitive restriction enzyme NotI. Here we demonstrate the accuracy and specificity of the method. By computationally mapping all NotI sites, methylation events can be defined with single-nucleotide precision throughout the genome. We also demonstrate the unique expandability of the array method using a different methylation-sensitive restriction enzyme, BssHII. We identified and validated new CpG island loci that are methylated in a tissue-specific manner in normal human tissues. The methylation status of the CpG islands is associated with gene expression for several genes, including SHANK3, which encodes a structural protein in neuronal postsynaptic densities. Defects in SHANK3 seem to underlie human 22q13 deletion syndrome. Furthermore, these patterns for SHANK3 are conserved in mice and rats.</p>},
	keywords = {Animals, Carrier Proteins, Chromosomes, Artificial, Bacterial, Conserved Sequence, CpG Islands, Deoxyribonucleases, Type II Site-Specific, DNA Methylation, Humans, Mice, Nerve Tissue Proteins, Oligonucleotide Array Sequence Analysis, Organ Specificity, Regulatory Sequences, Nucleic Acid, Reverse Transcriptase Polymerase Chain Reaction},
	issn = {1061-4036},
	doi = {10.1038/ng1563},
	author = {Ching, Tsui-Ting and Maunakea, Alika K and Jun, Peter and Hong, Chibo and Zardo, Giuseppe and Pinkel, Daniel and Albertson, Donna G and Fridlyand, Jane and Jiang-Hua Mao and Shchors, Ksenya and Weiss, William A and Costello, Joseph F}
}
