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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...
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Multiple Comparison Tests

Multiple comparison test, abbreviated as MCT, is a post hoc analysis generally performed after comparing multiple samples with one or more tests. An MCT will help identify a significantly different sample among multiple samples or a factor among multiple factors.
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Proteomics

A proteome is the entire set of proteins that a cell type produces. We can study proteomes using the knowledge of genomes because genes code for mRNAs, and the mRNAs encode proteins. Although mRNA analysis is a step in the right direction, not all mRNAs are translated into proteins.
Proteomics is the study of proteomes' function. It involves the large-scale systematic study of the proteome to denote the protein complement expressed by a genome. Scientist Mark Wilkins coined the term proteomics...

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Performing Custom MicroRNA Microarray Experiments
07:04

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Published on: October 28, 2011

The microarray manual curation tool (MMCT): A Web server for microarray probe evaluations.

Dan Tulpan1, Luc Belliveau, Serge Léger

  • 1Institute of Information Technology National Research Council of Canada Moncton, New Brunswick, E1A 7R1, Canada. dan.tulpan@nrc-cnrc.gc.ca

Bioinformation
|October 27, 2010
PubMed
Summary
This summary is machine-generated.

Poor quality probes in microarray technology can affect data analysis. The Microarray Manual Curation Tool (MMCT) offers computational and visual methods to assess oligo microarray probe quality, improving data reliability.

Keywords:
Bioinformaticsmicroarraysvisualizationweb server

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Area of Science:

  • Bioinformatics
  • Molecular Biology
  • Genomics

Background:

  • Microarray technology relies on high-quality probe sequences for accurate results.
  • Substandard probes can introduce significant errors into microarray data analysis.
  • Ensuring probe integrity is crucial for reliable genomic studies.

Purpose of the Study:

  • To introduce the Microarray Manual Curation Tool (MMCT), a web server application.
  • To provide computational and visual tools for assessing individual oligo microarray probe quality.
  • To enhance the accuracy of microarray data analysis through improved probe quality control.

Main Methods:

  • Developed the Microarray Manual Curation Tool (MMCT) as a web server application.
  • Implemented quality metrics assessing hybridization free energy.
  • Incorporated analysis of secondary structure in target-probe duplexes.
  • Ensured platform specificity for various oligo microarray types.

Main Results:

  • The MMCT provides quantitative and visual assessments of probe quality.
  • Quality metrics focus on hybridization thermodynamics and duplex stability.
  • The tool is applicable to diverse microarray platforms.
  • Facilitates identification and mitigation of poor-quality probes.

Conclusions:

  • The MMCT is a valuable resource for microarray probe quality control.
  • Improved probe quality assessment leads to more reliable microarray data.
  • The tool supports researchers in validating probe performance.
  • Enhances the overall integrity of genomic data generated by microarrays.