Electronic microarray analysis of 16S rDNA amplicons for bacterial detection

Barlaan, Edward A.; Sugimori, Miho; Furukawa, Seiichi; Takeuchi, Kazuhisa

doi:10.1016/j.jbiotec.2004.07.015

Cited by 29 publications

(22 citation statements)

References 28 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Within the sequence of the pan-HA RT-PCR product, capture probes with a theoretical melting temperature of 60 to 65°C were designed by following the guidelines compiled by Barlaan et al (4). For HA subtyping, probes targeting regions that are conserved within a given subtype but that are variable between subtypes were chosen.…”

Section: Methodsmentioning

confidence: 99%

Design and Validation of a Microarray for Detection, Hemagglutinin Subtyping, and Pathotyping of Avian Influenza Viruses

et al. 2009

View full text Add to dashboard Cite

Section: Methodsmentioning

confidence: 99%

Design and Validation of a Microarray for Detection, Hemagglutinin Subtyping, and Pathotyping of Avian Influenza Viruses

et al. 2009

View full text Add to dashboard Cite

“…DNA arrays have two main uses in microbiology: Detection of known pathogens, and assessment of diversity 113) . In general, a PCR amplification step using specific primer sets is used to generated labeled DNA 9,11,27,58,79,95,96,100,105,136,156,173,182) . This requirement of predesigned oligomers for amplification and hybridization opens the possibility that many unknown organisms remain undetected (especially viruses which have no universal homologous gene).…”

Section: Introductionmentioning

confidence: 99%

Global Sequencing: A Review of Current Molecular Data and New Methods Available to Assess Microbial Diversity

Christen

2008

Microb. Environ.

View full text Add to dashboard Cite

Roughly estimating the diversity of life has for a long time been seen as a challenge. Sequences obtained from the environment by direct amplification are now seen as the sole mean to provide information for at least 99% of the prokaryotes in natural communities. Recent massive parallel sequencing technologies now allow to sequence nearly every sequence resulting from such amplification. Are we ready to deal with such a deluge of data? Using three recent publications (16S rRNA genes amplification in soil and seawater followed by massive parallel sequencing) as case examples, this review analyses the state of the field.

show abstract

“…Under control of electric fields, charged molecules (DNA; RNA, enzymes, proteins), nano-and micronscale structures can be directed to specific areas on the array, immobilized and hybridized. Besides analytical function, microelectronic arrays are also used for immobilization of DNA to make the attachment of nanoparticles possible [3][4][5][6].…”

Section: Tools For Analysis Of the Transcriptomementioning

confidence: 99%

The use of transcriptomic biomarkers for personalized medicine

Heidecker

Hare

2007

Heart Fail Rev

View full text Add to dashboard Cite

Microarrays are a high throughput technology that allows the quantification of tens of thousands of RNA transcripts in a single reaction. This new technology offers the promise of comprehensive study of disease at a genomic level, potentially identifying novel molecular abnormalities, developing novel clinical biomarkers, and investigating drug efficacy. The ability to develop a molecular profile corresponding to a therapeutic effect is the basis for the concept of drug repositioning. With regard to prediction of clinical events, microarray technology has the potential to contribute to the development of sophisticated new biomarkers useful as predictors of disease etiology, outcome, and responsiveness to therapy-so-called personalized medicine. Currently progress in the field is hampered by a degree of skepticism about the reliability of microarray data and its relevance for clinical applications. Here we discuss possible pitfalls of transcriptomic analysis, review current developments in the cardiovascular area and address the use of transcriptomics for clinical applications.

show abstract

Electronic microarray analysis of 16S rDNA amplicons for bacterial detection

Cited by 29 publications

References 28 publications

Design and Validation of a Microarray for Detection, Hemagglutinin Subtyping, and Pathotyping of Avian Influenza Viruses

Design and Validation of a Microarray for Detection, Hemagglutinin Subtyping, and Pathotyping of Avian Influenza Viruses

Global Sequencing: A Review of Current Molecular Data and New Methods Available to Assess Microbial Diversity

The use of transcriptomic biomarkers for personalized medicine

Contact Info

Product

Resources

About