Literature DB >> 24824477

Evaluating the sensitivity of hybridization-based epigenotyping using a methyl binding domain protein.

Brandon W Heimer1, Tatyana A Shatova, Jungkyu K Lee, Kaja Kaastrup, Hadley D Sikes.   

Abstract

Hypermethylation of CpG islands in gene promoter regions has been shown to be a predictive biomarker for certain diseases. Most current methods for methylation profiling are not well-suited for clinical analysis. Here, we report the development of an inexpensive device and an epigenotyping assay with a format conducive to multiplexed analysis.

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Year:  2014        PMID： 24824477      PMCID： PMC4312478          DOI： 10.1039/c4an00667d

Source DB:  PubMed          Journal:  Analyst        ISSN： 0003-2654            Impact factor:   4.616


  31 in total

1.  Preparation of DNA and protein micro arrays on glass slides coated with an agarose film.

Authors:  V Afanassiev; V Hanemann; S Wölfl
Journal:  Nucleic Acids Res       Date:  2000-06-15       Impact factor: 16.971

2.  Direct DNA methylation profiling using methyl binding domain proteins.

Authors:  Yinni Yu; Steve Blair; David Gillespie; Randy Jensen; David Myszka; Ahmed H Badran; Indraneel Ghosh; Alexander Chagovetz
Journal:  Anal Chem       Date:  2010-06-15       Impact factor: 6.986

Review 3.  Biomarkers in cancer staging, prognosis and treatment selection.

Authors:  Joseph A Ludwig; John N Weinstein
Journal:  Nat Rev Cancer       Date:  2005-11       Impact factor: 60.716

4.  Recirculating flow accelerates DNA microarray hybridization in a microfluidic device.

Authors:  Hyun Ho Lee; James Smoot; Zack McMurray; David A Stahl; Paul Yager
Journal:  Lab Chip       Date:  2006-07-13       Impact factor: 6.799

5.  Gene splicing and mutagenesis by PCR-driven overlap extension.

Authors:  Karin L Heckman; Larry R Pease
Journal:  Nat Protoc       Date:  2007       Impact factor: 13.491

6.  Rapid Prototyping of Microfluidic Systems in Poly(dimethylsiloxane).

Authors:  D C Duffy; J C McDonald; O J Schueller; G M Whitesides
Journal:  Anal Chem       Date:  1998-12-01       Impact factor: 6.986

7.  DNA methylation: bisulphite modification and analysis.

Authors:  Susan J Clark; Aaron Statham; Clare Stirzaker; Peter L Molloy; Marianne Frommer
Journal:  Nat Protoc       Date:  2006       Impact factor: 13.491

8.  DNA methylation markers predict outcome in node-positive, estrogen receptor-positive breast cancer with adjuvant anthracycline-based chemotherapy.

Authors:  Oliver Hartmann; Frédérique Spyratos; Nadia Harbeck; Dimo Dietrich; Anne Fassbender; Manfred Schmitt; Serenella Eppenberger-Castori; Vincent Vuaroqueaux; Florence Lerebours; Katrin Welzel; Sabine Maier; Achim Plum; Stephan Niemann; John A Foekens; Ralf Lesche; John W M Martens
Journal:  Clin Cancer Res       Date:  2009-01-01       Impact factor: 12.531

9.  Methylation-specific PCR: a novel PCR assay for methylation status of CpG islands.

Authors:  J G Herman; J R Graff; S Myöhänen; B D Nelkin; S B Baylin
Journal:  Proc Natl Acad Sci U S A       Date:  1996-09-03       Impact factor: 11.205

10.  Engineering a high-affinity methyl-CpG-binding protein.

Authors:  Helle F Jørgensen; Karen Adie; Pascal Chaubert; Adrian P Bird
Journal:  Nucleic Acids Res       Date:  2006-08-07       Impact factor: 16.971
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  5 in total

1.  Label-free detection of missense mutations and methylation differences in the p53 gene using optically diffracting hydrogels.

Authors:  Kelsey I MacConaghy; Duncan M Chadly; Mark P Stoykovich; Joel L Kaar
Journal:  Analyst       Date:  2015-09-21       Impact factor: 4.616

Review 2.  Microfluidic epigenomic mapping technologies for precision medicine.

Authors:  Chengyu Deng; Lynette B Naler; Chang Lu
Journal:  Lab Chip       Date:  2019-07-24       Impact factor: 6.799

3.  Characterization and directed evolution of a methyl-binding domain protein for high-sensitivity DNA methylation analysis.

Authors:  Brandon W Heimer; Brooke E Tam; Hadley D Sikes
Journal:  Protein Eng Des Sel       Date:  2015-09-18       Impact factor: 1.650

4.  An examination of critical parameters in hybridization-based epigenotyping using magnetic microparticles.

Authors:  Brooke E Tam; Yining Hao; Hadley D Sikes
Journal:  Biotechnol Prog       Date:  2018-07-27

5.  Engineering affinity agents for the detection of hemi-methylated CpG sites in DNA.

Authors:  B E Tarn; K-J Sung; H D Sikes
Journal:  Mol Syst Des Eng       Date:  2016-09-07
  5 in total

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