A parallelized microfluidic DNA bisulfite conversion module for streamlined methylation analysis

详细信息    查看全文

• 作者：Alejandro Stark ; Dong Jin Shin ; Thomas Pisanic II…
• 关键词：Epigenetics ; Bisulfite conversion ; MSP ; Methylation ; Lab ; on ; chip ; Magnetofluidics
• 刊名：Biomedical Microdevices
• 出版年：2016
• 出版时间：February 2016
• 年：2016
• 卷：18
• 期：1
• 全文大小：3,072 KB
• 参考文献：V.J. Bailey, Y. Zhang, B.P. Keeley, C. Yin, K.L. Pelosky, M.V. Brock, S.B. Baylin, J.G. Herman, T.-H. Wang, Clin. Chem. 56, 1022 (2010)CrossRef
  A.P. Bird, Nature 321, 209 (1985)CrossRef
  S.A. Bustin, V. Benes, J.A. Garson, J. Hellemans, J. Huggett, M. Kubista, R. Mueller, T. Nolan, M.W. Pfaffl, G.L. Shipley, J. Vandesompele, C.T. Wittwer, Clin. Chem. 55, 611 (2009)CrossRef
  C.H. Chiou, D.J. Shin, Y. Zhang, T.-H. Wang, Biosens. Bioelectron. 50, 91 (2013)CrossRef
  P.M. Das, R. Singal, J. Clin. Oncol. 22, 4632 (2004)CrossRef
  S. Dedeurwaerder, M. Defrance, E. Calonne, H. Denis, C. Sotiriou, F. Fuks, Epigenomics 3, 771 (2011)CrossRef
  J. Dupont, J. Tost, H. Jammes, I. Glynne, Anal. Biochem. 333, 119 (2004)CrossRef
  C.A. Eads, K.D. Danenberg, K. Kawakami, L.B. Saltz, C. Blake, D. Shibata, P.V. Danenberg, P.W. Laird, Nucleic Acids Res. 28, e32 (2000)CrossRef
  M. Ehrlich, Oncogene 21, 5400 (2002)CrossRef
  M. Frommer, L.E. McDonald, D.S. Millar, C.M. Collis, F. Watt, G.W. Grigg, P.L. Molloy, C.L. Paul, Proc. Natl. Acad. Sci. U. S. A. 89, 1827 (1992)CrossRef
  M.A.M. Gijs, Microfluid. Nanofluid 1, 22 (2004)
  J.G. Herman, F. Latif, Y. Weng, M.I. Lerman, B. Zbar, S. Liu, D. Samid, D.S. Duan, J.R. Gnarra, W.M. Linehan, Proc. Natl. Acad. Sci. U. S. A. 91, 9700 (1994)CrossRef
  J.G. Herman, J.R. Graff, S. Myöhänen, B.D. Nelkin, S.B. Baylin, Proc. Natl. Acad. Sci. U. S. A. 93, 9821 (1996)CrossRef
  J.G. Herman, S.B. Baylin, N. Engl, J. Med. 349, 2042 (2003)
  B. Keeley, A. Stark, T.R. Pisanic, R. Kwak, Y. Zhang, J. Wrangle, S.B. Baylin, J.G. Herman, N. Ahuja, M.V. Brock, T.-H. Wang, Clin. Chim. Acta 425, 169 (2013)CrossRef
  H. Kim, M.J. Jebrail, A. Sinha, Z.W. Bent, O.D. Solberg, K.P. Williams, S.A. Langevin, R.F. Renzi, J.L. Van De Vreugde, R.J. Meagher, J.S. Schoeniger, T.W. Lane, S.S. Branda, M.S. Bartsch, K.D. Patel, PLoS One 8, e68988 (2013)CrossRef
  J.-G. Lee, K.H. Cheong, N. Huh, S. Kim, J.-W. Choi, C. Ko, Lab Chip 6, 886 (2006)CrossRef
  U. Lehmann, C. Vandevyver, V.K. Parashar, M.A.M. Gijs, Angew. Chem. Int. Ed 45, 3062 (2006)CrossRef
  R. Mariella Jr., Biomed. Microdevices 10, 777 (2008)CrossRef
  A. Merlo, J.G. Herman, L. Mao, D.J. Lee, E. Gabrielson, P.C. Burger, S.B. Baylin, D. Sidransky, Nat. Med. 1, 686 (1995)CrossRef
  E.M. Miller, A.R. Wheeler, Anal. Chem. 80, 1614 (2008)CrossRef
  P. Mitchell, Nat. Biotechnol. 19, 717 (2001)CrossRef
  R. Mori, Q. Wang, D. Kd, P. Jk, D. Pv, Prostate 380, 1 (2008)
  T. Ohashi, H. Kuyama, N. Hanafusa, Y. Togawa, Biomed. Microdevices 9, 695 (2007)CrossRef
  S. Park, Y. Zhang, S. Lin, T.-H. Wang, S. Yang, Biotechnol. Adv. 29, 830 (2011)CrossRef
  T.H. Schulte, R.L. Bardell, B.H. Weigl, Clin. Chim. Acta 321, 1 (2002)CrossRef
  D.J. Shin, Y. Zhang, T.-H. Wang, Microfluid. Nanofluid 17, 425 (2014)CrossRef
  C. Spits, C. Le Caignec, M. De Rycke, L. Van Haute, A. Van Steirteghem, I. Liebaers, K. Sermon, Nat. Protoc. 1, 1965 (2006)CrossRef
  V. Srinivasan, V.K. Pamula, R.B. Fair, Lab Chip 4, 310 (2004)CrossRef
  D. Svec, A. Tichopad, V. Novosadova, M.W. Pfaffl, M. Kubista, Biomol. Detect. Quantif. 3, 9 (2015)CrossRef
  O.D. Velev, B.G. Prevo, K.H. Bhatt, Nature 426, 515 (2003)CrossRef
  E. Verpoorte, Lab Chip 3, 60N (2003)CrossRef
  R.H.A.M. Vossen, E. Aten, A. Roos, J.T. den Dunnen, Hum. Mutat. 30, 860 (2009)CrossRef
  T.K. Wojdacz, A. Dobrovic, Nucleic Acids Res. 35, e41 (2007)CrossRef
  A.R. Wu, T.L.A. Kawahara, N.A. Rapicavoli, J. Van Riggelen, E.H. Shroff, L. Xu, D.W. Felsher, H.Y. Chang, S.R. Quake, Lab Chip 12, 2190 (2012)CrossRef
  Z. Xiong, P.W. Laird, Nucleic Acids Res. 25, 2532 (1997)CrossRef
  J.M. Yi, A.A. Guzzetta, V.J. Bailey, S.R. Downing, L. Van Neste, K.B. Chiappinelli, B.P. Keeley, A. Stark, A. Herrera, C. Wolfgang, E.P. Pappou, C.A. Iacobuzio-Donahue, M.G. Goggins, J.G. Herman, T.-H. Wang, S.B. Baylin, N. Ahuja, Clin. Cancer Res. 19, 6544 (2013)CrossRef
  Y. Zhang, T.-H. Wang, Adv. Mater. 25, 2903 (2013)CrossRef
  Y. Zhang, S. Park, K.J. Liu, J. Tsuan, S. Yang, T.-H. Wang, Lab Chip 11, 398 (2011)CrossRef
  
• 作者单位：Alejandro Stark (1)
  Dong Jin Shin (2)
  Thomas Pisanic II (3)
  Kuangwen Hsieh (1)
  Tza-Huei Wang (1) (2) (3)
  
  1. Department of Mechanical Engineering, Johns Hopkins University, Baltimore, MD, 21218, USA
  2. Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD, 21218, USA
  3. Johns Hopkins Institute for NanoBioTechnology, Baltimore, MD, 21218, USA
  
• 刊物类别：Engineering
• 刊物主题：Biomedical Engineering
  Biophysics and Biomedical Physics
  Nanotechnology
  Engineering Fluid Dynamics
  
• 出版者：Springer Netherlands
• ISSN：1572-8781

文摘

Aberrant methylation of DNA has been identified as an epigenetic biomarker for numerous cancer types. The vast majority of techniques aimed at detecting methylation require bisulfite conversion of the DNA sample prior to analysis, which until now has been a benchtop process. Although microfluidics has potential benefits of simplified operation, sample and reagent economy, and scalability, bisulfite conversion has yet to be implemented in this format. Here, we present a novel droplet microfluidic design that facilitates rapid bisulfite conversion by reducing the necessary processing steps while retaining comparable performance to existing methods. This new format has a reduced overall processing time and is readily scalable for use in high throughput DNA methylation analysis.