Optimization of aptamer microarray technology for multiple protein targets

Cho, Eun Jeong; Collett, James R.; Szafranska, Anna E.; Ellington, Andrew D.

doi:10.1016/j.aca.2005.12.038

Cited by 165 publications

(136 citation statements)

References 61 publications

Supporting

Mentioning

129

Contrasting

Unclassified

Order By: Relevance

“…In particular, the previous fluorescence based bioanalytic assays have confirmed the binding of thrombin on TBA surfaces, prepared with identical functionalization approach [31]. Furthermore, the additional surface-regeneration step for this aptamer-target system aimed to separate the two biorecognition partners in an efficient manner [49,59] was implemented using NaOH in quartz crystal microbalance technique (QCM, Figure S2), and obtaining saturation levels after 270 nM thrombin, in agreement with previous findings [31] and other publications [60,61].This important step could be further integrated into the SiNW FET concept to increase the lifetime of the microchips by recycling.…”

Section: Hysteresis Of the Transfer Curve Versus Subthreshold Shift Dsupporting

confidence: 74%

Gating Hysteresis as an Indicator for Silicon Nanowire FET Biosensors

et al. 2018

View full text Add to dashboard Cite

Abstract:We present a biosensor chip with integrated large area silicon nanowire-based field effect transistors (FET) for human α-thrombin detection and propose to implement the hysteresis width of the FET transfer curve as a reliable parameter to quantify the concentration of biomolecules in the solution. We further compare our results to conventional surface potential based measurements and demonstrate that both parameters distinctly respond at a different analyte concentration range. A combination of the two approaches would provide broader possibilities for detecting biomolecules that are present in a sample with highly variable concentrations, or distinct biomolecules that can be found at very different levels. Finally, we qualitatively discuss the physical and chemical origin of the hysteresis signal and associate it with the polarization of thrombin molecules upon binding to the receptor at the nanowire surface.

show abstract

Section: Hysteresis Of the Transfer Curve Versus Subthreshold Shift Dsupporting

confidence: 74%

Gating Hysteresis as an Indicator for Silicon Nanowire FET Biosensors

et al. 2018

View full text Add to dashboard Cite

show abstract

“…52,56,[62][63][64][65][66][67][68] This is due to the difficulty in tethering RNA molecules to a surface without loss of functionality. Most initial efforts at RNA microarray fabrication have involved modified RNA sequences such as biotinylated RNA 56,64,65 or thiol-modified RNA. 67 For example, Ellington and coworkers 56 created an aptamer microarray by printing four different (two DNA and two RNA) biotin-modified aptamers onto streptavidin-coated glass slides for the quantitative and simultaneous detection of multiple protein targets.…”

Section: Iii1 Nucleic Acid Aptamer Microarraysmentioning

confidence: 99%

“…[56][57][58][59] Lindner and co-workers 58 immobilized 5 -amino-modified DNA aptamers via glutaraldehyde linkage on amino-silanized glass substrates and compared the binding affinity of aptamer microarrays with antibody microarrays which are both selective towards the same fluorescently-labeled thrombin target. It was clearly demonstrated that aptamer-based analyte recognition was at least as sensitive as antibody-based detection.…”

Section: Iii1 Nucleic Acid Aptamer Microarraysmentioning

confidence: 99%

Microarray methods for protein biomarker detection

Lee

Wark

Corn

2008

Analyst

137

108

View full text Add to dashboard Cite

The application of protein biomarkers as an aid for the detection and treatment of diseases has been subject to intensified interest in recent years. The quantitative assaying of protein biomarkers in easily obtainable biological fluids such as serum and urine offers the opportunity to improve patient care via earlier and more accurate diagnoses in a convenient, non-invasive manner as well as providing a potential route towards more individually targeted treatment. Essential to achieving progress in biomarker technology is the ability to screen large numbers of proteins simultaneously in a single experiment with high sensitivity and selectivity. In this article, we highlight recent progress in the use of microarrays for high-throughput biomarker profiling and discuss some of the challenges associated with these efforts. I IntroductionThe discovery of protein biomarkers whose change in expression level or state correlates with the progression of a disease is becoming increasingly important. Once validated, proposed biomarkers can be involved in achieving an earlier diagnosis, differentiating between disease types with greater accuracy, and assessing response to treatment. Prominent examples of biomarkers include proteins that are associated with a variety of cancers, 1-4 as well as heart, 5,6 renal, 7,8 andAlzheimer's 9,10 diseases.Most biomarker studies reported to date have focused on serum-, plasmaand urine-based samples. A number of other possibilities include saliva, tears, breath condensates, cerebrospinal fluid and tissue lysates extracted from biopsy samples. There are several excellent reviews detailing biomarker discovery and validation. [11][12][13][14][15] The potential benefits of biomarkers have greatly motivated both academic and industry researchers to apply new proteomic technologies for biomarker discovery and to develop quantitative analytical methodologies for rapid and sensitive biomarker detection. Many clinically relevant biomarkers reside in blood at picomolar concentrations and lower, which is five to seven orders of magnitude lower than the most abundant plasma proteins. Therefore, protein detection with high specificity and sensitivity is required; unfortunately, no universal ultrasensitive enzymatic amplification method (such as PCR for the case of nucleic acid detection) exists for proteins. Additionally, it is desirable to screen multiple proteins simultaneously in a single sample. Multiplexed measurements are attractive not only for economic reasons but also for identifying characteristic signal patterns associated with the relative changes in entire sets of proteins as this will provide much more insight and diagnostic accuracy than individual biomarker measurements.hyejinlee@knu.ac.kr. 14,19,[24][25][26][27][28][29][30] Although microarray methods are wellestablished for high-throughput nucleic acid studies, their application for protein detection has been limited by issues such as the surface immobilization of protein capture probes without loss in bioactivity as well a...

show abstract

“…Additionally, the response of an aptamer in solution can be significantly different than when it is attached to an array surface 16 . Several studies report differences in aptamer affinity when comparing microarray and solution-based dissociation constant measurements 14,17 . In most cases the affinities of these aptamers were significantly lower on the microarray than when tested in the solution-based conditions used during their selection 15 .…”

Section: Microarray-based Aptamer Identificationmentioning

confidence: 99%

“…Many parameters will affect the aptamer response that are not as significant in cDNA hybridizations, including: probe density, proximity of the binding site to the surface, immobilization orientation (5' or 3' end) and even the buffer used in the studies 13,14 . It has been confirmed that known DNA aptamers can be immobilized on a microarray and conditions to preserve their activity can be found 11 , and the conditions used for these studies should mimic the conditions used during the initial solutionbased selection process 15 .…”

Section: Microarray-based Aptamer Identificationmentioning

confidence: 99%