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Journal articles on the topic 'Microarray'

Author: Grafiati

Published: 4 June 2021

Last updated: 25 July 2025

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1

Handley, Daniel, Nicoleta Serban, David G. Peters, and Clark Glymour. "Concerns About Unreliable Data from Spotted cDNA Microarrays Due to Cross-Hybridization and Sequence Errors." Statistical Applications in Genetics and Molecular Biology 3, no. 1 (2004): 1–2. http://dx.doi.org/10.2202/1544-6115.1091.

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We discuss our concerns regarding the reliability of data generated by spotted cDNA microarrays. Two types of error we highlight are cross-hybridization artifact due to sequence homologies and sequence errors in the cDNA used for spotting on microarrays. We feel that statisticians who analyze microarray data should be aware of these sources of unreliability intrinsic to cDNA microarray design and use.

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Chiodi, Elisa, Allison M. Marn, Matthew T. Geib, and M. Selim Ünlü. "The Role of Surface Chemistry in the Efficacy of Protein and DNA Microarrays for Label-Free Detection: An Overview." Polymers 13, no. 7 (2021): 1026. http://dx.doi.org/10.3390/polym13071026.

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The importance of microarrays in diagnostics and medicine has drastically increased in the last few years. Nevertheless, the efficiency of a microarray-based assay intrinsically depends on the density and functionality of the biorecognition elements immobilized onto each sensor spot. Recently, researchers have put effort into developing new functionalization strategies and technologies which provide efficient immobilization and stability of any sort of molecule. Here, we present an overview of the most widely used methods of surface functionalization of microarray substrates, as well as the mo

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BS, Shreenidhi, and Saravanakumar Ramachandran. "Microarray image enhancement techniques by denoising: Current status and future directions." International Journal of Natural Sciences Research 11, no. 1 (2023): 44–51. http://dx.doi.org/10.18488/63.v11i1.3393.

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Microarray imaging is a technique for simultaneously detecting the expression of numerous genes. Microarrays are simply a slide with unique Deoxyribonucleic Acid (DNA) probes, often known as gene chips. This paper aims to provide an overview of important contributions to the field of image denoising in the context of microarray imaging. The methodologies discussed in the article include various techniques of transform domain and spatial filtering methods for denoising microarray images that can be used to improve the quality of microarray images. We have identified the strengths and limitation

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Raczynski, Lech, Krzysztof Wozniak, Tymon Rubel, and Krzysztof Zaremba. "Application of Density Based Clustering to Microarray Data Analysis." International Journal of Electronics and Telecommunications 56, no. 3 (2010): 281–86. http://dx.doi.org/10.2478/v10177-010-0037-9.

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Application of Density Based Clustering to Microarray Data AnalysisIn just a few years, gene expression microarrays have rapidly become a standard experimental tool in the biological and medical research. Microarray experiments are being increasingly carried out to address the wide range of problems, including the cluster analysis. The estimation of the number of clusters in datasets is one of the main problems of clustering microarrays. As a supplement to the existing methods we suggest the use of a density based clustering technique DBSCAN that automatically defines the number of clusters. T

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Liang, Mingyu, Amy G. Briggs, Elizabeth Rute, Andrew S. Greene, and Allen W. Cowley. "Quantitative assessment of the importance of dye switching and biological replication in cDNA microarray studies." Physiological Genomics 14, no. 3 (2003): 199–207. http://dx.doi.org/10.1152/physiolgenomics.00143.2002.

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Dye switching and biological replication substantially increase the cost and the complexity of cDNA microarray studies. The objective of the present analysis was to quantitatively assess the importance of these procedures to provide a quantitative basis for decision-making in the design of microarray experiments. Taking advantage of the unique characteristics of a published data set, the impact of these procedures on the reliability of microarray results was calculated. Adding a second microarray with dye switching substantially increased the correlation coefficient between observed and predic

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Whipple, Mark Eliot, and Winston Patrick Kuo. "DNA Microarrays in Otolaryngology-Head and Neck Surgery." Otolaryngology–Head and Neck Surgery 127, no. 3 (2002): 196–204. http://dx.doi.org/10.1067/mhn.2002.127383.

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OBJECTIVES: Our goal was to review the technologies underlying DNA microarrays and to explore their use in otolaryngology-head and neck surgery. STUDY DESIGN: The current literature relating to microarray technology and methodology is reviewed, specifically the use of DNA microarrays to characterize gene expression. Bioinformatics involves computational and statistical methods to extract, organize, and analyze the huge amounts of data produced by microarray experiments. The means by which these techniques are being applied to otolaryngology-head and neck surgery are outlined. RESULTS: Microarr

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Maziidah Mukhtar Ahmad and Asral Bahari Jambek. "Efficient Hexagonal Gridding Method for DNA Microarray Image." International Journal of Advanced Communication Technology (IJACT) 4 (November 19, 2024): 1–18. https://doi.org/10.58915/ijact.v4.2024.767.

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In genetics, a deoxyribonucleic acid (DNA) microarray is a useful instrument that is frequently used to track thousands of genes' expression levels simultaneously. For DNA microarray, gene expression is done through microarray spot gridding, segmentation and intensity extraction. The gridding processes identify each microarray spot location and supply their coordinates for the spot. Many microarray technologies arrange their microarray spots in in rectangular fashion. However, a hexagonal grid arrangement is also being used to increase the density of the spot per unit area. While gridding micr

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García-Albert, L., F. Martín-Sánchez, A. García-Sáiz, and G. H. López-Campos. "Analysis and Management of HIV Peptide Microarray Experiments." Methods of Information in Medicine 45, no. 02 (2006): 158–62. http://dx.doi.org/10.1055/s-0038-1634060.

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Summary Objectives: To develop a tool for then easy and user-friendly management of peptide microarray experiments and for the use of the results of these experiments for the study the immune response against HIV virus infection in clinical samples. Methods: Applying bioinformatics and statistics for the analysis of data coming from microarray experiments as well as implementing a MIAME (Minimum Information About a Microarray Experiment) compliant database for managing and annotating experiments, results and samples. Results: We present a new tool for managing not only nucleic acid microarray

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White, Christine A., and Lois A. Salamonsen. "A guide to issues in microarray analysis: application to endometrial biology." Reproduction 130, no. 1 (2005): 1–13. http://dx.doi.org/10.1530/rep.1.00685.

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Within the last decade, the development of DNA microarray technology has enabled the simultaneous measurement of thousands of gene transcripts in a biological sample. Conducting a microarray study is a multi-step process; starting with a well-defined biological question, moving through experimental design, target RNA preparation, microarray hybridisation, image acquisition and data analysis – finishing with a biological interpretation requiring further study. Advances continue to be made in microarray quality and methods of statistical analysis, improving the reliability and therefore appeal o

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Liu, Yan. "Neoglycolipid (NGL)-based oligosaccharide microarrays and highlights of their recent applications in studies of the molecular basis of pathogen–host interactions." Biochemical Society Transactions 38, no. 5 (2010): 1361–67. http://dx.doi.org/10.1042/bst0381361.

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Carbohydrate microarray technologies are new developments at the frontier of glycomics that are showing great promise as tools for high-throughput analysis of carbohydrate-mediated interactions and the elucidation of carbohydrate ligands involved not only in endogenous receptor systems, but also pathogen–host interactions. The main advantage of microarray analysis is that a broad range of glycan sequences can be immobilized on solid matrices as minute spots and simultaneously interrogated. Different methodologies have emerged for constructing carbohydrate microarrays. The NGL (neoglycolipid)-b

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Paredes, Carlos J., Ryan S. Senger, Iwona S. Spath, Jacob R. Borden, Ryan Sillers, and Eleftherios T. Papoutsakis. "A General Framework for Designing and Validating Oligomer-Based DNA Microarrays and Its Application to Clostridium acetobutylicum." Applied and Environmental Microbiology 73, no. 14 (2007): 4631–38. http://dx.doi.org/10.1128/aem.00144-07.

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ABSTRACT While DNA microarray analysis is widely accepted as an essential tool for modern biology, its use still eludes many researchers for several reasons, especially when microarrays are not commercially available. In that case, the design, construction, and use of microarrays for a sequenced organism constitute substantial, time-consuming, and expensive tasks. Recently, it has become possible to construct custom microarrays using industrial manufacturing processes, which offer several advantages, including speed of manufacturing, quality control, no up-front setup costs, and need-based mic

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Fesseha, Haben, and Hiwot Tilahun. "Principles and Applications of Deoxyribonucleic Acid Microarray: A Review." Pathology and Laboratory Medicine – Open Journal 3, no. 1 (2021): 1–9. http://dx.doi.org/10.17140/plmoj-3-109.

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Deoxyribonucleic acid (DNA) microarrays are collections of DNA probes arranged on a base pair and the latest commercialized molecular diagnostic technologies that offer high throughput results, more sensitive and require less time. It is the most reliable and widely accepted tool facilitating the simultaneous identification of thousands of genetic elements even a single gene. Microarrays are powerful new tools for the investigation of global changes in gene expression profiles in cells and tissues. The different types of DNA microarray or DNA chip devices and systems are described along with t

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Kyselková, M., J. Kopecký, M. Ságová-Marečková, G. L. Grundmann, and Y. Moënne-Loccoz. "Oligonucleotide microarray methodology for taxonomic and functional monitoringof microbial community composition." Plant, Soil and Environment 55, No. 9 (2009): 379–88. http://dx.doi.org/10.17221/140/2009-pse.

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Microarray analysis is a cultivation-independent, high-throughput technology that can be used for direct and simultaneous identification of microorganisms in complex environmental samples. This review summarizes current methodologies for oligonucleotide microarrays used in microbial ecology. It deals with probe design, microarray manufacturing, sample preparation and labeling, and data handling, as well as with the key features of microarray analysis such as specificity, sensitivity and quantification potential. Microarray analysis has been validated as an effective approach to describe the co

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Trost, Brett, Catherine A. Moir, Zoe E. Gillespie, Anthony Kusalik, Jennifer A. Mitchell, and Christopher H. Eskiw. "Concordance between RNA-sequencing data and DNA microarray data in transcriptome analysis of proliferative and quiescent fibroblasts." Royal Society Open Science 2, no. 9 (2015): 150402. http://dx.doi.org/10.1098/rsos.150402.

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DNA microarrays and RNA sequencing (RNA-seq) are major technologies for performing high-throughput analysis of transcript abundance. Recently, concerns have been raised regarding the concordance of data derived from the two techniques. Using cDNA libraries derived from normal human foreskin fibroblasts, we measured changes in transcript abundance as cells transitioned from proliferative growth to quiescence using both DNA microarrays and RNA-seq. The internal reproducibility of the RNA-seq data was greater than that of the microarray data. Correlations between the RNA-seq data and the individu

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Miller, Melissa B., and Yi-Wei Tang. "Basic Concepts of Microarrays and Potential Applications in Clinical Microbiology." Clinical Microbiology Reviews 22, no. 4 (2009): 611–33. http://dx.doi.org/10.1128/cmr.00019-09.

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SUMMARY The introduction of in vitro nucleic acid amplification techniques, led by real-time PCR, into the clinical microbiology laboratory has transformed the laboratory detection of viruses and select bacterial pathogens. However, the progression of the molecular diagnostic revolution currently relies on the ability to efficiently and accurately offer multiplex detection and characterization for a variety of infectious disease pathogens. Microarray analysis has the capability to offer robust multiplex detection but has just started to enter the diagnostic microbiology laboratory. Multiple mi

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Wang, Zhiyou, Xiaoqing Huang, and Zhiqiang Cheng. "Automatic Spot Identification Method for High Throughput Surface Plasmon Resonance Imaging Analysis." Biosensors 8, no. 3 (2018): 85. http://dx.doi.org/10.3390/bios8030085.

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An automatic spot identification method is developed for high throughput surface plasmon resonance imaging (SPRi) analysis. As a combination of video accessing, image enhancement, image processing and parallel processing techniques, the method can identify the spots in SPRi images of the microarray from SPRi video data. In demonstrations of the method, SPRi video data of different protein microarrays were processed by the method. Results show that our method can locate spots in the microarray accurately regardless of the microarray pattern, spot-background contrast, light nonuniformity and spo

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Berthuy, Ophélie I., Sinan K. Muldur, François Rossi, Pascal Colpo, Loïc J. Blum, and Christophe A. Marquette. "Multiplex cell microarrays for high-throughput screening." Lab on a Chip 16, no. 22 (2016): 4248–62. http://dx.doi.org/10.1039/c6lc00831c.

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Shi, Chongwei. "DNA Microarray Technology Principles and Applications in Genetic Research." Computer Life 12, no. 3 (2024): 19–22. http://dx.doi.org/10.54097/a9b7d148.

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DNA microarray technology, a high-throughput gene analysis tool, has played a crucial role in genetic research. This paper explores the fundamental principles of DNA microarray technology, including its working mechanisms, sample preparation, and types of chips. It emphasizes the applications of DNA microarrays in detecting genetic variations and analyzing gene expression profiles, illustrating examples in single nucleotide polymorphism (SNP) analysis and genome-wide association studies (GWAS). The paper also discusses the technical details of high-throughput gene expression measurement and di

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Aparna, G. M., and Kishore K. R. Tetala. "Recent Progress in Development and Application of DNA, Protein, Peptide, Glycan, Antibody, and Aptamer Microarrays." Biomolecules 13, no. 4 (2023): 602. http://dx.doi.org/10.3390/biom13040602.

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Microarrays are one of the trailblazing technologies of the last two decades and have displayed their importance in all the associated fields of biology. They are widely explored to screen, identify, and gain insights on the characteristics traits of biomolecules (individually or in complex solutions). A wide variety of biomolecule-based microarrays (DNA microarrays, protein microarrays, glycan microarrays, antibody microarrays, peptide microarrays, and aptamer microarrays) are either commercially available or fabricated in-house by researchers to explore diverse substrates, surface coating, i

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Roszkowiak, Lukasz, and Carlos Lopez. "PATMA: parser of archival tissue microarray." PeerJ 4 (December 1, 2016): e2741. http://dx.doi.org/10.7717/peerj.2741.

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The tissue microarrays are commonly used in modern pathology for cancer tissue evaluation, as it is a very potent technique. Tissue microarray slides are often scanned to perform computer-aided histopathological analysis of the tissue cores. For processing the image, splitting the whole virtual slide into images of individual cores is required. The only way to distinguish cores corresponding to specimens in the tissue microarray is through their arrangement. Unfortunately, distinguishing the correct order of cores is not a trivial task as they are not labelled directly on the slide. The main a

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Cao, Yiwei, Sang-Jun Park, Akul Y. Mehta, Richard D. Cummings, and Wonpil Im. "GlyMDB: Glycan Microarray Database and analysis toolset." Bioinformatics 36, no. 8 (2019): 2438–42. http://dx.doi.org/10.1093/bioinformatics/btz934.

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Abstract Motivation Glycan microarrays are capable of illuminating the interactions of glycan-binding proteins (GBPs) against hundreds of defined glycan structures, and have revolutionized the investigations of protein–carbohydrate interactions underlying numerous critical biological activities. However, it is difficult to interpret microarray data and identify structural determinants promoting glycan binding to glycan-binding proteins due to the ambiguity in microarray fluorescence intensity and complexity in branched glycan structures. To facilitate analysis of glycan microarray data alongsi

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Jack, Philippa, and David Boyle. "DNA microarrays for pathogen detection and characterisation." Microbiology Australia 27, no. 2 (2006): 68. http://dx.doi.org/10.1071/ma06068.

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DNA microarrays have three main potential diagnostic uses in clinical microbiology: detection of known pathogens, pathogen typing and novel pathogen discovery. Although DNA microarray platforms offer the ability to screen for a large number of agents in parallel, sensitivity is dependent on the ability to obtain adequate amounts of pathogen nucleic acids from collected samples. In general, high levels of sensitivity require a PCR amplification step using specific primer sets, subsequently reducing the overall scope of the microarray assay. At present, relatively high costs, restricted sample t

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Rao, Sreevidya Sadananda Sadasiva, Lori A. Shepherd, Andrew E. Bruno, Song Liu, and Jeffrey C. Miecznikowski. "Comparing Imputation Procedures for Affymetrix Gene Expression Datasets Using MAQC Datasets." Advances in Bioinformatics 2013 (October 9, 2013): 1–10. http://dx.doi.org/10.1155/2013/790567.

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Introduction. The microarray datasets from the MicroArray Quality Control (MAQC) project have enabled the assessment of the precision, comparability of microarrays, and other various microarray analysis methods. However, to date no studies that we are aware of have reported the performance of missing value imputation schemes on the MAQC datasets. In this study, we use the MAQC Affymetrix datasets to evaluate several imputation procedures in Affymetrix microarrays. Results. We evaluated several cutting edge imputation procedures and compared them using different error measures. We randomly dele

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KOSTIĆ, TANJA, BEATRIX STESSL, MARTIN WAGNER, and ANGELA SESSITSCH. "Microarray Analysis Reveals the Actual Specificity of Enrichment Media Used for Food Safety Assessment." Journal of Food Protection 74, no. 6 (2011): 1030–34. http://dx.doi.org/10.4315/0362-028x.jfp-10-388.

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Microbial diagnostic microarrays are tools for simultaneous detection and identification of microorganisms in food, clinical, and environmental samples. In comparison to classic methods, microarray-based systems have the potential for high throughput, parallelism, and miniaturization. High specificity and high sensitivity of detection have been demonstrated. A microbial diagnostic microarray for the detection of the most relevant bacterial food- and waterborne pathogens and indicator organisms was developed and thoroughly validated. The microarray platform based on sequence-specific end labeli

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Osadare, Ibukun Elizabeth, Stefan Monecke, Abdinasir Abdilahi, et al. "Fast and Economic Microarray-Based Detection of Species-, Resistance-, and Virulence-Associated Genes in Clinical Strains of Vancomycin-Resistant Enterococci (VRE)." Sensors 24, no. 19 (2024): 6476. http://dx.doi.org/10.3390/s24196476.

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Today, there is a continuous worldwide battle against antimicrobial resistance (AMR) and that includes vancomycin-resistant enterococci (VRE). Methods that can adequately and quickly detect transmission chains in outbreaks are needed to trace and manage this problem fast and cost-effectively. In this study, DNA-microarray-based technology was developed for this purpose. It commenced with the bioinformatic design of specific oligonucleotide sequences to obtain amplification primers and hybridization probes. Microarrays were manufactured using these synthesized oligonucleotides. A highly paralle

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Weninger, F., S. Merk, A. Kohlmann, T. Haferlach, and M. Dugas. "A Generic Concept for Large-scale Microarray Analysis Dedicated to Medical Diagnostics." Methods of Information in Medicine 45, no. 02 (2006): 146–52. http://dx.doi.org/10.1055/s-0038-1634058.

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Summary Background: The development of diagnostic procedures based on microarray analysis confronts the bioinformatician and the biomedical researcher with a variety of challenges. Microarrays generate a huge amount of data. There are many, not yet clearly defined, data processing steps and many clinical response variables which may not match gene expression patterns. Objectives: To design a generic concept for large-scale microarray experiments dedicated to medical diagnostics; to create a system capable of handling several 1000 microarrays per analysis and more than 100 clinical response var

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Huang, Joe Xi, Dorothy Mehrens, Rick Wiese, et al. "High-Throughput Genomic and Proteomic Analysis Using Microarray Technology." Clinical Chemistry 47, no. 10 (2001): 1912–16. http://dx.doi.org/10.1093/clinchem/47.10.1912.

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Abstract Background: High-density microarrays are ideally suited for analyzing thousands of genes against a small number of samples. The next step in the discovery process is to take the resulting genes of interest and rapidly screen them against thousands of patient samples, tissues, or cell lines to further investigate their involvement in disease risk or the response to medication. Methods: We used a microarray technology platform for both single-nucleotide polymorphisms (SNPs) and protein expression. Each microarray contains up to 250 elements that can be customized for each application. S

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Aittokallio, Tero, Markus Kurki, Olli Nevalainen, Tuomas Nikula, Anne West, and Riitta Lahesmaa. "Computational Strategies for Analyzing Data in Gene Expression Microarray Experiments." Journal of Bioinformatics and Computational Biology 01, no. 03 (2003): 541–86. http://dx.doi.org/10.1142/s0219720003000319.

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Microarray analysis has become a widely used method for generating gene expression data on a genomic scale. Microarrays have been enthusiastically applied in many fields of biological research, even though several open questions remain about the analysis of such data. A wide range of approaches are available for computational analysis, but no general consensus exists as to standard for microarray data analysis protocol. Consequently, the choice of data analysis technique is a crucial element depending both on the data and on the goals of the experiment. Therefore, basic understanding of bioinf

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Kostrzynska, M., and A. Bachand. "Application of DNA microarray technology for detection, identification, and characterization of food-borne pathogens." Canadian Journal of Microbiology 52, no. 1 (2006): 1–8. http://dx.doi.org/10.1139/w05-105.

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DNA microarrays represent the latest advance in molecular technology. In combination with bioinformatics, they provide unparalleled opportunities for simultaneous detection of thousands of genes or target DNA sequences and offer tremendous potential for studying food-borne microorganisms. This review provides an up-to-date look at the application of DNA microarray technology to detect food-borne pathogenic bacteria, viruses, and parasites. In addition, it covers the advantages of using microarray technology to further characterize microorganisms by providing information for specific identifica

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Lacroix, M., N. Zammatteo, J. Remacle, and G. Leclercq. "A Low-Density DNA Microarray for Analysis of Markers in Breast Cancer." International Journal of Biological Markers 17, no. 1 (2002): 5–23. http://dx.doi.org/10.1177/172460080201700102.

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Breast cancer remains a major cause of death in women from Western countries. In the near future, advances in both nucleic acids technology and tumor biology should be widely exploited to improve the diagnosis, prognosis, and outcome prediction of this disease. The DNA microarray, also called biochip, is a promising tool for performing massive, simultaneous, fast, and standardized analyses of multiple molecular markers in tumor samples. However, most currently available microarrays are expensive, which is mainly due to the amount (several thousands) of different DNA capture sequences that they

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Schmidberger, Markus, Esmeralda Vicedo, and Ulrich Mansmann. "affyPara—a Bioconductor Package for Parallelized Preprocessing Algorithms of Affymetrix Microarray Data." Bioinformatics and Biology Insights 3 (January 2009): BBI.S3060. http://dx.doi.org/10.4137/bbi.s3060.

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Microarray data repositories as well as large clinical applications of gene expression allow to analyse several hundreds of microarrays at one time. The preprocessing of large amounts of microarrays is still a challenge. The algorithms are limited by the available computer hardware. For example, building classification or prognostic rules from large microarray sets will be very time consuming. Here, preprocessing has to be a part of the cross-validation and resampling strategy which is necessary to estimate the rule's prediction quality honestly. This paper proposes the new Bioconductor packag

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Chandler, Wells M., Leslie R. Rowe, Scott R. Florell, Mona S. Jahromi, Joshua D. Schiffman, and Sarah T. South. "Differentiation of Malignant Melanoma From Benign Nevus Using a Novel Genomic Microarray With Low Specimen Requirements." Archives of Pathology & Laboratory Medicine 136, no. 8 (2012): 947–55. http://dx.doi.org/10.5858/arpa.2011-0330-oa.

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Context.—Histologic examination of clinically suspicious melanocytic lesions is very sensitive and specific for the detection of malignant melanoma. Yet, the malignant potential of a small percentage of melanocytic lesions remains histologically uncertain. Molecular testing offers the potential to detect the genetic alterations that lead to malignant behavior without overt histologic evidence of malignancy. Objective.—To differentiate benign melanocytic nevi from malignant melanoma and to predict the clinical course of melanocytic lesions with ambiguous histology using a novel genomic microarr

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Zhao, Jianmei, Xuecang Li, Jincheng Guo, et al. "ReCirc: prediction of circRNA expression and function through probe reannotation of non-circRNA microarrays." Molecular Omics 15, no. 2 (2019): 150–63. http://dx.doi.org/10.1039/c8mo00252e.

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Yuvaraj, K., and D. Manjula. "A performance analysis of clustering based algorithms for the microarray gene expression data." International Journal of Engineering & Technology 7, no. 2.21 (2018): 201. http://dx.doi.org/10.14419/ijet.v7i2.21.12172.

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Current advancements in microarray technology permit simultaneous observing of the expression levels of huge number of genes over various time points. Microarrays have obtained amazing implication in the field of bioinformatics. It includes an ordered set of huge different Deoxyribonucleic Acid (DNA) sequences that can be used to measure both DNA as well as Ribonucleic Acid (RNA) dissimilarities. The Gene Expression (GE) summary aids in understanding the basic cause of gene activities, the growth of genes, determining recent disorders like cancer and as well analysing their molecular pharmacol

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Santoro, Stephanie L., Sayaka Hashimoto, Aimee McKinney, et al. "Assessing the Clinical Utility of SNP Microarray for Prader-Willi Syndrome due to Uniparental Disomy." Cytogenetic and Genome Research 152, no. 2 (2017): 105–9. http://dx.doi.org/10.1159/000478921.

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Maternal uniparental disomy (UPD) 15 is one of the molecular causes of Prader-Willi syndrome (PWS), a multisystem disorder which presents with neonatal hypotonia and feeding difficulty. Current diagnostic algorithms differ regarding the use of SNP microarray to detect PWS. We retrospectively examined the frequency with which SNP microarray could identify regions of homozygosity (ROH) in patients with PWS. We determined that 7/12 (58%) patients with previously confirmed PWS by methylation analysis and microsatellite-positive UPD studies had ROH (>10 Mb) by SNP microarray. Additional assessme

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Murphy, David. "GENE EXPRESSION STUDIES USING MICROARRAYS: PRINCIPLES, PROBLEMS, AND PROSPECTS." Advances in Physiology Education 26, no. 4 (2002): 256–70. http://dx.doi.org/10.1152/advan.00043.2002.

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Anumber of mammalian genomes having been sequenced, an important next step is to catalog the expression patterns of all transcription units in health and disease by use of microarrays. Such discovery programs are crucial to our understanding of the gene networks that control developmental, physiological, and pathological processes. However, despite the excitement, the full promise of microarray technology has yet to be realized, as the superficial simplicity of the concept belies considerable problems. Microarray technology is very new; methodologies are still evolving, common standards have y

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Kusi-Appiah, A. E., T. W. Lowry, E. M. Darrow, et al. "Quantitative dose–response curves from subcellular lipid multilayer microarrays." Lab on a Chip 15, no. 16 (2015): 3397–404. http://dx.doi.org/10.1039/c5lc00478k.

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Call, Douglas R., Marlene K. Bakko, Melissa J. Krug, and Marilyn C. Roberts. "Identifying Antimicrobial Resistance Genes with DNA Microarrays." Antimicrobial Agents and Chemotherapy 47, no. 10 (2003): 3290–95. http://dx.doi.org/10.1128/aac.47.10.3290-3295.2003.

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ABSTRACT We developed and tested a glass-based microarray suitable for detecting multiple tetracycline (tet) resistance genes. Microarray probes for 17 tet genes, the β-lactamase bla TEM-1 gene, and a 16S ribosomal DNA gene (Escherichia coli) were generated from known controls by PCR. The resulting products (ca. 550 bp) were applied as spots onto epoxy-silane-derivatized, Teflon-masked slides by using a robotic spotter. DNA was extracted from test strains, biotinylated, hybridized overnight to individual microarrays at 65°C, and detected with Tyramide Signal Amplification, Alexa Fluor 546, and

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Croner, Roland S., Berthold Lausen, Vera Schellerer, et al. "Comparability of Microarray Data between Amplified and Non Amplified RNA in Colorectal Carcinoma." Journal of Biomedicine and Biotechnology 2009 (2009): 1–9. http://dx.doi.org/10.1155/2009/837170.

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Microarray analysis reaches increasing popularity during the investigation of prognostic gene clusters in oncology. The standardisation of technical procedures will be essential to compare various datasets produced by different research groups. In several projects the amount of available tissue is limited. In such cases the preamplification of RNA might be necessary prior to microarray hybridisation. To evaluate the comparability of microarray results generated either by amplified or non amplified RNA we isolated RNA from colorectal cancer samples (stage UICC IV) following tumour tissue enrich

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Kundalia, Paras H., Lucia Pažitná, Kristína Kianičková, Eduard Jáné, Lenka Lorencová, and Jaroslav Katrlík. "A Holistic 4D Approach to Optimize Intrinsic and Extrinsic Factors Contributing to Variability in Microarray Biosensing in Glycomics." Sensors 23, no. 12 (2023): 5362. http://dx.doi.org/10.3390/s23125362.

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Protein–carbohydrate interactions happen to be a crucial facet of biology, discharging a myriad of functions. Microarrays have become a premier choice to discern the selectivity, sensitivity and breadth of these interactions in a high-throughput manner. The precise recognition of target glycan ligands among the plethora of others is central for any glycan-targeting probe being tested by microarray analyses. Ever since the introduction of the microarray as an elemental tool for high-throughput glycoprofiling, numerous distinct array platforms possessing different customizations and assemblies h

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Marjani, Sadie L., Daniel Le Bourhis, Xavier Vignon, et al. "Embryonic gene expression profiling using microarray analysis." Reproduction, Fertility and Development 21, no. 1 (2009): 22. http://dx.doi.org/10.1071/rd08217.

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Microarray technology enables the interrogation of thousands of genes at one time and therefore a systems level of analysis. Recent advances in the amplification of RNA, genome sequencing and annotation, and the lower cost of developing microarrays or purchasing them commercially, have facilitated the analysis of single preimplantation embryos. The present review discusses the components of embryonic expression profiling and examines current research that has used microarrays to study the effects of in vitro production and nuclear transfer.

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Liu, Quanjun, Yunfei Bai, Qinyu Ge, Shixin Zhou, Tian Wen, and Zuhong Lu. "Microarray-in-a-Tube for Detection of Multiple Viruses." Clinical Chemistry 53, no. 2 (2007): 188–94. http://dx.doi.org/10.1373/clinchem.2006.071720.

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Abstract Background: The detection of multiple viruses is important for pathogenic diagnosis and disease control. Microarray detection is a good method, but requires complex procedures for multiple virus detection. Methods: We developed a novel PCR assay, the microarray-in-a-tube system, which integrates multiple PCR processes and DNA microarrays for multiple virus detection. A 5 × 5 oligonucleotide microarray for detecting 4 respiratory tract viruses (severe acute respiratory syndrome–associated coronavirus, influenza A virus, influenza B virus, and enterovirus) with inner controls was arrang

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Jia, Kun, Miao Yu, Gui-Hong Zhang, et al. "Detection and identification of Mycobacterium tuberculosis and Mycobacterium bovis from clinical species using DNA microarrays." Journal of Veterinary Diagnostic Investigation 24, no. 1 (2011): 156–60. http://dx.doi.org/10.1177/1040638711417141.

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The objectives of the current study were to evaluate the use of DNA microarray for the rapid and direct detection of Mycobacterium tuberculosis and Mycobacterium bovis in bovine milk, blood, and pharyngeal swab samples, and to compare the use of DNA microarrays with current molecular detection techniques. The present study describes a microarray assay based on mtp40 and pncA gene sequences, which can be used to detect M. tuberculosis and M. bovis species. Each probe was spotted onto a silylated glass slide with an arrayer and used for hybridization with fluorescently labeled DNA derived from a

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Campanero-Rhodes, María Asunción, Enrique Llobet, José Antonio Bengoechea, and Dolores Solís. "Bacteria microarrays as sensitive tools for exploring pathogen surface epitopes and recognition by host receptors." RSC Advances 5, no. 10 (2015): 7173–81. http://dx.doi.org/10.1039/c4ra14570d.

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We have developed a readily adaptable microarray technology for high-throughput screening of pathogen-binding biomolecules and inhibitors of pathogen–counter-receptor interactions, based on the generation of bacteria microarrays.

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Nersisyan, Stepan, Maxim Shkurnikov, Andrey Poloznikov, et al. "A Post-Processing Algorithm for miRNA Microarray Data." International Journal of Molecular Sciences 21, no. 4 (2020): 1228. http://dx.doi.org/10.3390/ijms21041228.

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One of the main disadvantages of using DNA microarrays for miRNA expression profiling is the inability of adequate comparison of expression values across different miRNAs. This leads to a large amount of miRNAs with high scores which are actually not expressed in examined samples, i.e., false positives. We propose a post-processing algorithm which performs scoring of miRNAs in the results of microarray analysis based on expression values, time of discovery of miRNA, and correlation level between the expressions of miRNA and corresponding pre-miRNA in considered samples. The algorithm was succe

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Rafique, Saima, Farukh Kiyani, Sumbal Jawaid, et al. "Reusable, Noninvasive, and Sensitive Fluorescence Enhanced ZnO-Nanorod-Based Microarrays for Quantitative Detection of AFP in Human Serum." BioMed Research International 2021 (July 15, 2021): 1–11. http://dx.doi.org/10.1155/2021/9916909.

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The fabrication of sensitive protein microarrays such as PCR used in DNA microarray is challenging due to lack of signal amplification. The development of microarrays is utilized to improve the sensitivity and limitations of detection towards primal cancer detection. The sensitivity is enhanced by the use of ZnO-nanorods and is investigated as a substrate which enhance the florescent signal to diagnose the hepatocellular carcinoma (HCC) at early stages. The substrate for deposition of ZnO-nanorods is prepared by the conventional chemical bath deposition method. The resultant highly dense ZnO-n

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ZHANG, YONG. "INTEGRATION OF NANOPARTICLES WITH PROTEIN MICROARRAYS." International Journal of Nanoscience 05, no. 02n03 (2006): 189–94. http://dx.doi.org/10.1142/s0219581x0600422x.

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A variety of DNA, protein or cell microarray devices and systems have been developed and commercialized. In addition to the biomolecule related analysis, they are also being used for pharmacogenomic research, infectious and genetic disease and cancer diagnostics, and proteomic and cellular analysis.1 Currently, microarray is fabricated on a planar surface; this limits the amount of biomolecules that can be bounded on the surface. In this work, a planar protein microarray chip with nonplanar spot surface was fabricated to enhance the chip performance. A nonplanar spot surface was created by fir

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Jenkins, Elizabeth S., Caren Broadhead, and Robert D. Combes. "The Implications of Microarray Technology for Animal Use in Scientific Research." Alternatives to Laboratory Animals 30, no. 4 (2002): 459–65. http://dx.doi.org/10.1177/026119290203000408.

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Microarray technology has the potential to affect the number of laboratory animals used, the severity of animal experiments, and the development of non-animal alternatives in several areas of scientific research. Microarrays can contain hundreds or thousands of microscopic spots of DNA, immobilised on a solid support, and their use enables global patterns of gene expression to be determined in a single experiment. This technology is being used to improve our understanding of the operation of biological systems during health and disease, and their responses to chemical insults. Although it is i

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Selvarajah, Senthooran, Ola H. Negm, Mohamed R. Hamed, et al. "Development and Validation of Protein Microarray Technology for Simultaneous Inflammatory Mediator Detection in Human Sera." Mediators of Inflammation 2014 (2014): 1–12. http://dx.doi.org/10.1155/2014/820304.

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Biomarkers, including cytokines, can help in the diagnosis, prognosis, and prediction of treatment response across a wide range of disease settings. Consequently, the recent emergence of protein microarray technology, which is able to quantify a range of inflammatory mediators in a large number of samples simultaneously, has become highly desirable. However, the cost of commercial systems remains somewhat prohibitive. Here we show the development, validation, and implementation of an in-house microarray platform which enables the simultaneous quantitative analysis of multiple protein biomarker

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Forster, T., D. Roy, and P. Ghazal. "Experiments using microarray technology: limitations and standard operating procedures." Journal of Endocrinology 178, no. 2 (2003): 195–204. http://dx.doi.org/10.1677/joe.0.1780195.

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Microarrays are a powerful method for the global analysis of gene or protein content and expression, opening up new horizons in molecular and physiological systems. This review focuses on the critical aspects of acquiring meaningful data for analysis following fluorescence-based target hybridisation to arrays. Although microarray technology is adaptable to the analysis of a range of biomolecules (DNA, RNA, protein, carbohydrates and lipids), the scheme presented here is applicable primarily to customised DNA arrays fabricated using long oligomer or cDNA probes. Rather than provide a comprehens

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