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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...

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Performing Custom MicroRNA Microarray Experiments
07:04

Performing Custom MicroRNA Microarray Experiments

Published on: October 28, 2011

Teolenn: an efficient and customizable workflow to design high-quality probes for microarray experiments.

Laurent Jourdren1, Aurélie Duclos, Christian Brion

  • 1Institut de Biologie de l'Ecole Normale Supérieure, Institut National de la Santé et de la Recherche Médicale U1024, Centre National de la Recherche Scientifique UMR8197, 75005 Paris, France.

Nucleic Acids Research
|February 24, 2010
PubMed
Summary
This summary is machine-generated.

Teolenn is a new universal probe design workflow that generates quality scores for oligonucleotides. This scoring pipeline correlates with hybridization signal quality, improving microarray design for small genomes.

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Last Updated: Jun 16, 2026

Performing Custom MicroRNA Microarray Experiments
07:04

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Published on: October 28, 2011

DNA Microarrays: Sample Quality Control, Array Hybridization and Scanning
09:27

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Published on: March 15, 2011

High-Density DNA and RNA microarrays - Photolithographic Synthesis, Hybridization and Preparation of Large Nucleic Acid Libraries
11:22

High-Density DNA and RNA microarrays - Photolithographic Synthesis, Hybridization and Preparation of Large Nucleic Acid Libraries

Published on: August 12, 2019

Area of Science:

  • Genomics
  • Bioinformatics
  • Molecular Biology

Background:

  • Microarrays remain valuable for studying small genomes due to multiplexing and high-feature density.
  • Oligonucleotide probe design is a critical and often challenging step for microarray users.
  • Existing software solutions for probe design employ diverse strategies, complicating user choice.

Purpose of the Study:

  • To introduce Teolenn, a universal probe design workflow.
  • To develop a flexible and customizable module organization for generating fixed or variable length oligonucleotides.
  • To provide quality scores for designed probes and validate their relevance.

Main Methods:

  • Developed Teolenn, a universal probe design workflow with modular organization.
  • Implemented functionality for generating fixed and variable length oligonucleotides.
  • Assessed probe scoring relevance through real hybridization experiments using a Trichoderma reesei tiling array.

Main Results:

  • Teolenn's scoring pipeline demonstrated a 97.2% correlation with signal quality in real hybridization experiments.
  • The quality scores allow for effective discarding of low-scoring probes during the design phase.
  • This leads to the generation of higher-quality microarrays.

Conclusions:

  • Teolenn provides a reliable method for designing high-quality oligonucleotide probes for microarrays.
  • The integrated quality scoring system significantly enhances the efficiency and accuracy of microarray design.
  • Teolenn is a valuable tool for researchers studying small genome organisms.