Hydrogel drop microchips with immobilized DNA: properties and methods for large-scale production

Rubina, A. Yu.; Pan’kov, S. V.; Dementieva, Ekaterina; Penkov, Dimitar; Butygin, A.V; Vasiliskov, V. A.; Чудинов, А. В.; Mikheikin, Andrey; Mikhailovich, Vladimir; Mirzabekov, Andrei D.

doi:10.1016/j.ab.2003.10.010

Cited by 161 publications

(117 citation statements)

References 43 publications

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“…Sequences of other immobilized oligonucleotides have been published elsewhere [33]. Microarrays of polyacrylamide gel pads were prepared by photoinduced copolymerization of oligonucleotides and polyacrylamide gel components as described previously [52].…”

Section: Oligonucleotide Synthesis and Microchip Productionmentioning

confidence: 99%

Polymorphisms in xenobiotic‐metabolizing genes and the risk of chronic lymphocytic leukemia and non‐Hodgkin's lymphoma in adult Russian patients

et al. 2007

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Polymorphisms in genes coding xenobiotic-metabolizing enzymes are considered as risk factors modifying susceptibility to cancer. We developed a biochip for the analysis of 18 mutations in 10 genes of metabolizing system: CYP1A1, CYP2D6, GSTT1, GSTM1, MTHFR, MTRR, NQO1, CYP2C9, CYP2C19, and NAT2. Using allele-specific hybridization on the biochip 76 T-cell non-Hodgkin's lymphoma (NHL) patients, 83 B-cell chronic lymphocytic leukemia (B-CLL) patients, and 177 healthy donors were tested. Polymorphic CYP1A1 alleles were more frequent in B-CLL patients relative to normal controls, for example, a combination of polymorphic variants 4887C > A, 4889A > G, and 6235T > C (OR 5 1.76, 95% CI 5 1.0-3.1). The GSTM1 null genotype was more frequent in NHL patients relative to controls (OR 5 1.82, 95% CI 5 1.1-3.1). The combination of unfavorable polymorphic CYP1A1 variants and GSTM1 null genotype was found more frequently in B-CLL patients relative to controls (OR 5 2.52, 95% CI 5 1.3-4.9). In addition, male B-CLL patients demonstrated a significantly increased occurrence of heterozygous and homozygous allele *2 of CYP2C9 gene (OR 5 2.38, 95% CI 5 1.1-5.2) as well as a combination of alleles *2 and *3 of the gene (OR 5 2.09, 95% CI 5 1.1-3.9). Thus, our findings show the association between polymorphic alleles of CYP1A1, GSTM1, and CYP2C9 genes and the risk to develop NHL or B-CLL. The developed biochip can be considered as a convenient analytical tool for research studies and predictive analysis in oncohematology. Am. J. Hematol. 83:279-287, 2008. V

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Section: Oligonucleotide Synthesis and Microchip Productionmentioning

confidence: 99%

Polymorphisms in xenobiotic‐metabolizing genes and the risk of chronic lymphocytic leukemia and non‐Hodgkin's lymphoma in adult Russian patients

et al. 2007

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“…Polymer coatings of type 2C and 2D can be chemically crosslinked resulting in a 3D network (structure not shown in Fig. 2) [46][47][48]. Hydrogels based on polyacrylic acid derivatives and other gel forming compounds such as dextranes and cellulose derivatives contain a large amount of water thus providing a convenient environment with solution-like properties preserving protein function [19,49,50].…”

Section: Molecular Architecturementioning

confidence: 99%

“…The properties of the resulting material and the amount of immobilized protein can be controlled by adjusting the ratio of monomers and crosslinker. This technique was also applied to immobilize DNA in a hydrogel [48]. A filtration-based microarray technique using nylon filter membranes as support material for the detection of low abundance target protein was described by Xu and Bao [68].…”

Section: Molecular Architecturementioning

confidence: 99%

Microarray Technology as a Universal Tool for High-Throughput Analysis of Biological Systems

Sobek¹,

Bartscherer²,

Jacob³

et al. 2006

CCHTS

109

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Over the last years microarray technology has become one of the principal platform technologies for the highthroughput analysis of biological systems. Starting with the construction of first DNA microarrays in the 1990s, microarray technology has flourished in the last years and many different new formats have been developed. Peptide and protein microarrays are now applied for the elucidation of interaction partners, modification sites and enzyme substrates. Antibody microarrays are envisaged to be of high importance for the high-throughput determination of protein abundances in translational profiling approaches. First cell microarrays have been constructed to transform microarray technology from an in vitro technology to an in vivo functional analysis tool. All of these approaches share a common prerequisite: the solid support on which they are generated. The demands on this solid support are thereby as manifold as the applications themselves. This review is aimed to display the recent developments in surface chemistry and derivatization, and to summarize the latest developments in the different application areas of microarray technology.

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“…This observation could not be attributed to nonuniform distribution of immobilized primers as it was earlier demonstrated that immobilized oligonucleotides are distributed uniformly in a gel pad. 26 Further steps undertaken to understand this phenomenon indicates that it is an intrinsic property of SP-PCR rather than an artifact of nonuniform primer immobilization.…”

Section: A Pcr Signal Through the Array Elementmentioning

confidence: 99%

The role of DNA diffusion in solid phase polymerase chain reaction with gel-immobilized primers in planar and capillary microarray format

Drobyshev

Nasedkina

Zakharova³

2009

Biomicrofluidics

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The solid phase polymerase chain reaction ͑PCR͒ on a gel-based microarray system was studied under various durations of individual stages of the PCR cycle and spatial restriction of the reaction volume. Combining the experimental study with numerical modeling, we demonstrated that the diffusion of the PCR product in and out of a microarray element during the annealing and melting stages, respectively, is the main factor responsible for distinctive features of the studied type of PCR. The restriction of reaction volume leads to faster PCR signal growth. Particularly, the capillary array, whereby gel-based microarray elements are located on a glass bar inserted into capillary chamber, was found to be a suitable format for the development of the platform.

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Hydrogel drop microchips with immobilized DNA: properties and methods for large-scale production

Cited by 161 publications

References 43 publications

Polymorphisms in xenobiotic‐metabolizing genes and the risk of chronic lymphocytic leukemia and non‐Hodgkin's lymphoma in adult Russian patients

Polymorphisms in xenobiotic‐metabolizing genes and the risk of chronic lymphocytic leukemia and non‐Hodgkin's lymphoma in adult Russian patients

Microarray Technology as a Universal Tool for High-Throughput Analysis of Biological Systems

The role of DNA diffusion in solid phase polymerase chain reaction with gel-immobilized primers in planar and capillary microarray format

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