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Related Concept Videos

DNA Microarrays02:34

DNA Microarrays

Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...
Labeling DNA Probes03:31

Labeling DNA Probes

DNA probes are fragments of DNA labeled with a reporter tag to enable their detection or purification. The resulting labeled DNA probes can then hybridize to target nucleic acid sequences through complementary base-pairing, and may be used to recover or identify these regions.
Radioisotopes, fluorophores, or small molecule binding partners like biotin or digoxigenin, are the most widely used reporter tags for labeling DNA probes. These labels can be attached to the probe DNA molecule via...
In-situ Hybridization02:31

In-situ Hybridization

In situ hybridization (ISH) is a technique used to detect and localize specific DNA or RNA molecules in cells, tissue, or tissue sections using a labeled probe. The technique was first used in 1969 for the investigation of nucleic acids. It is currently an essential tool in scientific research and clinical settings, especially for diagnostic purposes.
Types of probes and labels
A probe is a complementary strand of DNA or RNA that binds to corresponding nucleotide sequences in a cell. Many...

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Performing Custom MicroRNA Microarray Experiments
07:04

Performing Custom MicroRNA Microarray Experiments

Published on: October 28, 2011

Microarray probes and probe sets.

Hongfang Liu1, Ionut Bebu, Xin Li

  • 1Department of Biostatistics, Georgetown University Medical Center, Washington, DC 20007, USA.

Frontiers in Bioscience (Elite Edition)
|December 29, 2009
PubMed
Summary
This summary is machine-generated.

This study reviews DNA microarray probe selection and design, focusing on Affymetrix GeneChips. It discusses probe annotation, redefinition, and analysis methods for accurate gene expression monitoring in biomedical research.

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Area of Science:

  • Biotechnology
  • Genomics
  • Molecular Biology

Background:

  • DNA microarrays enable simultaneous monitoring of numerous gene expression levels, crucial for biomedical research.
  • Successful DNA microarray implementation relies on fabrication, probe selection, hybridization quantification, and data analysis.

Purpose of the Study:

  • To concentrate on DNA microarray probes, including their sources, selection criteria, and tools.
  • To review Affymetrix GeneChips, probe re-annotation, probe set regrouping, and redefinition comparisons.

Main Methods:

  • Review of probe sources, selection criteria, and available tools for DNA microarrays.
  • Detailed examination of Affymetrix GeneChips, including probe re-annotation strategies.
  • Comparison of different probe set redefinition methods using public datasets.

Main Results:

  • Identified key aspects of DNA microarray probe selection and design.
  • Provided a comprehensive review of Affymetrix GeneChip technology and probe set analysis.
  • Evaluated various probe redefinition methods for improved accuracy.

Conclusions:

  • Effective probe selection and annotation are critical for reliable DNA microarray data.
  • Re-annotation and redefinition of probes enhance the accuracy of gene expression analysis.
  • This work provides insights into optimizing DNA microarray probe design and data interpretation.