Methods for detection of methyl-CpG dinucleotides

Dunn, John J.

Title: Methods for detection of methyl-CpG dinucleotides

Patent · Tue Sep 11 00:00:00 EDT 2012

OSTI ID:1078331

Dunn, John J.

The invention provides methods for enriching methyl-CpG sequences from a DNA sample. The method makes use of conversion of cytosine residues to uracil under conditions in which methyl-cytosine residues are preserved. Additional methods of the invention enable to preservation of the context of me-CpG dinucleotides. The invention also provides a recombinant, full length and substantially pure McrA protein (rMcrA) for binding and isolation of DNA fragments containing the sequence 5'-C.sup.MeCpGG-3'. Methods for making and using the rMcrA protein, and derivatives thereof are provided.

View Patent

Cite

Export

Save

Research Organization:: Brookhaven National Laboratory (BNL), Upton, NY (United States)

Sponsoring Organization:: USDOE

DOE Contract Number:: AC02-98CH10886

Assignee:: Brookhaven Science Associates, LLC (Upton, NY)

Patent Number(s):: 8,263,742

Application Number:: 13/085,219

OSTI ID:: 1078331

Country of Publication:: United States

Language:: English

References (21)

MIRA-Assisted Microarray Analysis, a New Technology for the Determination of DNA Methylation Patterns, Identifies Frequent Methylation of Homeodomain-Containing Genes in Lung Cancer Cells Rauch, Tibor; Li, Hongwei; Wu, Xiwei Cancer Research, Vol. 66, Issue 16 https://doi.org/10.1158/0008-5472.CAN-06-1888	journal	August 2006
Methylated-CpG island recovery assay: a new technique for the rapid detection of methylated-CpG islands in cancer Rauch, Tibor; Pfeifer, Gerd P. Laboratory Investigation, Vol. 85, Issue 9 https://doi.org/10.1038/labinvest.3700311	journal	July 2005
The Strep-tag system for one-step purification and high-affinity detection or capturing of proteins Schmidt, Thomas GM; Skerra, Arne Nature Protocols, Vol. 2, Issue 6 https://doi.org/10.1038/nprot.2007.209	journal	June 2007
Evidence for an instructive mechanism of de novo methylation in cancer cells Keshet, Ilana; Schlesinger, Yeshayahu; Farkash, Shlomit Nature Genetics, Vol. 38, Issue 2 https://doi.org/10.1038/ng1719	journal	January 2006
MethyLight: a high-throughput assay to measure DNA methylation Eads, C. A. Nucleic Acids Research, Vol. 28, Issue 8 https://doi.org/10.1093/nar/28.8.e32	journal	April 2000
Genome-Wide Profiling of CpG Methylation Identifies Novel Targets of Aberrant Hypermethylation in Myeloid Leukemia Gebhard, Claudia; Schwarzfischer, Lucia; Pham, Thu-Hang Cancer Research, Vol. 66, Issue 12 https://doi.org/10.1158/0008-5472.CAN-06-0376	journal	June 2006
McrA and McrB restriction phenotypes of some E.coli strains and implications for gene cloning Raleigh, E. A.; Murray, N. E.; Revel, H. Nucleic Acids Research, Vol. 16, Issue 4 https://doi.org/10.1093/nar/16.4.1563	journal	January 1988
Direct Labeling of 5-Methylcytosine and Its Applications Tanaka, Kazuo; Tainaka, Kazuki; Kamei, Taku Journal of the American Chemical Society, Vol. 129, Issue 17 https://doi.org/10.1021/ja068660c	journal	May 2007
Chromosome-wide and promoter-specific analyses identify sites of differential DNA methylation in normal and transformed human cells Weber, Michael; Davies, Jonathan J.; Wittig, David Nature Genetics, Vol. 37, Issue 8 https://doi.org/10.1038/ng1598	journal	July 2005
MeCP2 Binding to DNA Depends upon Hydration at Methyl-CpG Ho, Kok Lian; McNae, Iain W.; Schmiedeberg, Lars Molecular Cell, Vol. 29, Issue 4 https://doi.org/10.1016/j.molcel.2007.12.028	journal	February 2008
Molecular cloning and sequencing of mcrA locus and identification of McrA protein inEscherichia coli Ramalingam, R.; Prasad, Ranjan; Shivapriya, R. Journal of Biosciences, Vol. 17, Issue 3 https://doi.org/10.1007/BF02703150	journal	September 1992
LUMA (LUminometric Methylation Assay)—A high throughput method to the analysis of genomic DNA methylation Karimi, Mohsen; Johansson, Sofia; Stach, Dirk Experimental Cell Research, Vol. 312, Issue 11 https://doi.org/10.1016/j.yexcr.2006.03.006	journal	July 2006
COBRA: a sensitive and quantitative DNA methylation assay Xiong, Z.; Laird, P. W. Nucleic Acids Research, Vol. 25, Issue 12 https://doi.org/10.1093/nar/25.12.2532	journal	June 1997
A genomic sequencing protocol that yields a positive display of 5-methylcytosine residues in individual DNA strands. Frommer, M.; McDonald, L. E.; Millar, D. S. Proceedings of the National Academy of Sciences, Vol. 89, Issue 5 https://doi.org/10.1073/pnas.89.5.1827	journal	March 1992
Purification of CpG islands using a methylated DNA binding column Cross, Sally H.; Charlton, Jillian A.; Nan, Xinsheng Nature Genetics, Vol. 6, Issue 3 https://doi.org/10.1038/ng0394-236	journal	March 1994
Atomic model of the 5-methylcytosine-specific restriction enzyme McrA reveals an atypical zinc finger and structural similarity to betabetaalphaMe endonucleases Bujnicki, Janusz M.; Radlinska, Monika; Rychlewski, Leszek Molecular Microbiology, Vol. 37, Issue 5 https://doi.org/10.1046/j.1365-2958.2000.02010.x	journal	September 2000
The affinity of different MBD proteins for a specific methylated locus depends on their intrinsic binding properties Fraga, M. F. Nucleic Acids Research, Vol. 31, Issue 6 https://doi.org/10.1093/nar/gkg249	journal	March 2003
Rapid and sensitive detection of CpG-methylation using methyl-binding (MB)-PCR Gebhard, C. Nucleic Acids Research, Vol. 34, Issue 11 https://doi.org/10.1093/nar/gkl437	journal	June 2006
High sensitivity mapping of methylated cytosines Susan, J. CIark; Harrison, Janet; Paul, Cheryl L. Nucleic Acids Research, Vol. 22, Issue 15 https://doi.org/10.1093/nar/22.15.2990	journal	January 1994
Methylation-specific PCR: a novel PCR assay for methylation status of CpG islands. Herman, J. G.; Graff, J. R.; Myohanen, S. Proceedings of the National Academy of Sciences, Vol. 93, Issue 18 https://doi.org/10.1073/pnas.93.18.9821	journal	September 1996
Rapid quantitation of methylation differences at specific sites using methylation-sensitive single nucleotide primer extension (Ms-SNuPE) Gonzalgo, M. L.; Jones, P. A. Nucleic Acids Research, Vol. 25, Issue 12 https://doi.org/10.1093/nar/25.12.2529	journal	June 1997

Similar Records

Methods for detection of methyl-CpG dinucleotides

Patent · Tue Nov 26 00:00:00 EST 2013 · OSTI ID:1078331

Dunn, John J

Methods for detection of methyl-CpG dinucleotides

Patent · Tue Jan 29 00:00:00 EST 2013 · OSTI ID:1078331

Dunn, John J.

Tissue-specific methylation of individual CpG dinucleotides in the 5{prime} upstream region of the mouse catalase gene (Cas-1)

Journal Article · Thu Sep 01 00:00:00 EDT 1994 · American Journal of Human Genetics · OSTI ID:1078331

Pillay, I L; Singh, S M

Related Subjects

59 BASIC BIOLOGICAL SCIENCES

Title: Methods for detection of methyl-CpG dinucleotides

Citation Formats

References (21)

Similar Records

Related Subjects