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

DNA Microarrays: Sample Quality Control, Array Hybridization and Scanning

Published on: March 15, 2011

Direct calibration of PICKY-designed microarrays.

Hui-Hsien Chou1, Arunee Trisiriroj, Sunyoung Park

  • 1Department of Genetics, Development and Cell Biology and Department of Computer Science, Iowa State University, Ames, IA 50011, USA. hhchou@iastate.edu

BMC Bioinformatics
|October 24, 2009
PubMed
Summary

Researchers can now optimize microarray hybridization conditions using a straightforward calibration method with PICKY-designed probes. This approach ensures reliable microarray performance across various temperatures and sample concentrations.

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Last Updated: Jun 19, 2026

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

DNA Microarrays: Sample Quality Control, Array Hybridization and Scanning

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

A Guided Materials Screening Approach for Developing Quantitative Sol-gel Derived Protein Microarrays
10:44

A Guided Materials Screening Approach for Developing Quantitative Sol-gel Derived Protein Microarrays

Published on: August 26, 2013

Area of Science:

  • Bioinformatics
  • Molecular Biology
  • Genomics

Background:

  • Quantitative calibration of microarrays is challenging due to the inherent variability of cDNA samples.
  • Precisely determining microarray hybridization characteristics is difficult with biological samples.

Purpose of the Study:

  • To evaluate microarrays designed by PICKY software.
  • To test a direct microarray calibration method using synthesized oligonucleotide samples.
  • To optimize microarray hybridization conditions.

Main Methods:

  • Microarray experiments using synthesized samples with known oligonucleotide concentrations.
  • Utilizing PICKY-predicted, thermodynamically closest nontarget information for calibration.
  • Archiving experimental results in the Gene Expression Omnibus (GEO) database (accession GSE14717).

Main Results:

  • PICKY-designed microarray probes demonstrate high reliability across diverse hybridization temperatures and sample concentrations.
  • The developed calibration method enables experimental optimization of hybridization conditions.
  • The method is applicable to PICKY-designed microarrays and can be adapted for other microarrays.

Conclusions:

  • PICKY software facilitates the design of reliable microarray probes.
  • A direct calibration method allows for experimental optimization of microarray hybridization.
  • This straightforward method is accessible to any laboratory utilizing PICKY-designed microarrays or willing to reanalyze existing ones.