Genome-wide determination of DNA methylation by Hpa II tiny fragment enrichment by ligation-mediated PCR (HELP) for the study of acute leukemias

Maria Figueroa, Ari Melnick, John M. Greally

Research output: Chapter in Book/Report/Conference proceedingChapter

29 Citations (Scopus)

Abstract

Aberrant distribution of cytosine methylation in cancer has been linked to deregulation of gene expression and genomic instability. DNA methylation changes in cancer include both hyper and hypomethylation, and the precise localization of these changes is directly related to the impact they have on gene regulation. To determine both the localization and extent of DNA methylation status under different conditions, we have developed the HpaII tiny fragment enrichment by ligation-mediated PCR (HELP) assay, a microarray-based technique that allows the simultaneous interrogation of the methylation status of hundreds of thousands of CpG dinucleotides. The HELP assay allows methylation levels throughout the genome to be accurately determined so that the epigenetic state of leukemia cells can be identified, compared, and contrasted.

Original languageEnglish (US)
Title of host publicationLeukemia
Subtitle of host publicationMethods and Protocols
EditorsChi Wai Eric So
Pages395-407
Number of pages13
DOIs
StatePublished - Dec 1 2009
Externally publishedYes

Publication series

NameMethods in Molecular Biology
Volume538
ISSN (Print)1064-3745

Fingerprint

DNA Methylation
Methylation
Ligation
Leukemia
Genome
Polymerase Chain Reaction
Genomic Instability
Cytosine
Epigenomics
Neoplasms
Gene Expression
Genes

Keywords

  • Acute leukemia
  • CpG dinucleotide
  • Cytosine methylation
  • Epigenetic
  • Epigenome
  • Microarray

ASJC Scopus subject areas

  • Molecular Biology
  • Genetics

Cite this

Figueroa, M., Melnick, A., & Greally, J. M. (2009). Genome-wide determination of DNA methylation by Hpa II tiny fragment enrichment by ligation-mediated PCR (HELP) for the study of acute leukemias. In C. W. E. So (Ed.), Leukemia: Methods and Protocols (pp. 395-407). (Methods in Molecular Biology; Vol. 538). https://doi.org/10.1007/978-1-59745-418-6_20

Genome-wide determination of DNA methylation by Hpa II tiny fragment enrichment by ligation-mediated PCR (HELP) for the study of acute leukemias. / Figueroa, Maria; Melnick, Ari; Greally, John M.

Leukemia: Methods and Protocols. ed. / Chi Wai Eric So. 2009. p. 395-407 (Methods in Molecular Biology; Vol. 538).

Research output: Chapter in Book/Report/Conference proceedingChapter

Figueroa, M, Melnick, A & Greally, JM 2009, Genome-wide determination of DNA methylation by Hpa II tiny fragment enrichment by ligation-mediated PCR (HELP) for the study of acute leukemias. in CWE So (ed.), Leukemia: Methods and Protocols. Methods in Molecular Biology, vol. 538, pp. 395-407. https://doi.org/10.1007/978-1-59745-418-6_20
Figueroa, Maria ; Melnick, Ari ; Greally, John M. / Genome-wide determination of DNA methylation by Hpa II tiny fragment enrichment by ligation-mediated PCR (HELP) for the study of acute leukemias. Leukemia: Methods and Protocols. editor / Chi Wai Eric So. 2009. pp. 395-407 (Methods in Molecular Biology).
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