Rapid microfluidic solid-phase extraction system for hyper-methylated DNA enrichment and epigenetic analysis

Arpita De; Wouter Sparreboom; Albert van den Berg; Edwin T. Carlen

doi:10.1063/1.4899059

Rapid microfluidic solid-phase extraction system for hyper-methylated DNA enrichment and epigenetic analysis

Arpita De
, Wouter Sparreboom
, Albert van den Berg
, Edwin T. Carlen

McKelvey School of Engineering

Research output: Contribution to journal › Article › peer-review

22 Scopus citations

Abstract

Genetic sequence and hyper-methylation profile information from the promoter regions of tumor suppressor genes are important for cancer disease investigation. Since hyper-methylated DNA (hm-DNA) is typically present in ultra-low concentrations in biological samples, such as stool, urine, and saliva, sample enrichment and amplification is typically required before detection. We present a rapid microfluidic solid phase extraction (μSPE) system for the capture and elution of low concentrations of hm-DNA (≤1 ng ml^-1), based on a protein-DNA capture surface, into small volumes using a passive microfluidic lab-on-a-chip platform. All assay steps have been qualitatively characterized using a real-time surface plasmon resonance (SPR) biosensor, and quantitatively characterized using fluorescence spectroscopy. The hm-DNA capture/elution process requires less than 5 min with an efficiency of 71% using a 25μl elution volume and 92% efficiency using a 100μl elution volume.

Original language	English
Article number	054119
Journal	Biomicrofluidics
Volume	8
Issue number	5
DOIs	https://doi.org/10.1063/1.4899059
State	Published - Oct 1 2014

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title = "Rapid microfluidic solid-phase extraction system for hyper-methylated DNA enrichment and epigenetic analysis",

abstract = "Genetic sequence and hyper-methylation profile information from the promoter regions of tumor suppressor genes are important for cancer disease investigation. Since hyper-methylated DNA (hm-DNA) is typically present in ultra-low concentrations in biological samples, such as stool, urine, and saliva, sample enrichment and amplification is typically required before detection. We present a rapid microfluidic solid phase extraction (μSPE) system for the capture and elution of low concentrations of hm-DNA (≤1 ng ml-1), based on a protein-DNA capture surface, into small volumes using a passive microfluidic lab-on-a-chip platform. All assay steps have been qualitatively characterized using a real-time surface plasmon resonance (SPR) biosensor, and quantitatively characterized using fluorescence spectroscopy. The hm-DNA capture/elution process requires less than 5 min with an efficiency of 71\% using a 25μl elution volume and 92\% efficiency using a 100μl elution volume.",

author = "Arpita De and Wouter Sparreboom and \{van den Berg\}, Albert and Carlen, \{Edwin T.\}",

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AU - De, Arpita

AU - Sparreboom, Wouter

AU - van den Berg, Albert

AU - Carlen, Edwin T.

PY - 2014/10/1

Y1 - 2014/10/1

N2 - Genetic sequence and hyper-methylation profile information from the promoter regions of tumor suppressor genes are important for cancer disease investigation. Since hyper-methylated DNA (hm-DNA) is typically present in ultra-low concentrations in biological samples, such as stool, urine, and saliva, sample enrichment and amplification is typically required before detection. We present a rapid microfluidic solid phase extraction (μSPE) system for the capture and elution of low concentrations of hm-DNA (≤1 ng ml-1), based on a protein-DNA capture surface, into small volumes using a passive microfluidic lab-on-a-chip platform. All assay steps have been qualitatively characterized using a real-time surface plasmon resonance (SPR) biosensor, and quantitatively characterized using fluorescence spectroscopy. The hm-DNA capture/elution process requires less than 5 min with an efficiency of 71% using a 25μl elution volume and 92% efficiency using a 100μl elution volume.

AB - Genetic sequence and hyper-methylation profile information from the promoter regions of tumor suppressor genes are important for cancer disease investigation. Since hyper-methylated DNA (hm-DNA) is typically present in ultra-low concentrations in biological samples, such as stool, urine, and saliva, sample enrichment and amplification is typically required before detection. We present a rapid microfluidic solid phase extraction (μSPE) system for the capture and elution of low concentrations of hm-DNA (≤1 ng ml-1), based on a protein-DNA capture surface, into small volumes using a passive microfluidic lab-on-a-chip platform. All assay steps have been qualitatively characterized using a real-time surface plasmon resonance (SPR) biosensor, and quantitatively characterized using fluorescence spectroscopy. The hm-DNA capture/elution process requires less than 5 min with an efficiency of 71% using a 25μl elution volume and 92% efficiency using a 100μl elution volume.

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U2 - 10.1063/1.4899059

DO - 10.1063/1.4899059

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ER -

Rapid microfluidic solid-phase extraction system for hyper-methylated DNA enrichment and epigenetic analysis

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