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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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Performing Data Mining And Integrative Analysis Of Biomarker in Breast Cancer Using Multiple Publicly Accessible Databases
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Published on: May 17, 2019

Microarray retriever: a web-based tool for searching and large scale retrieval of public microarray data.

Alexander E Ivliev1, Peter A C 't Hoen, Michel P Villerius

  • 1Center for Human and Clinical Genetics, Leiden University Medical Center, Leiden, The Netherlands.

Nucleic Acids Research
|May 9, 2008
PubMed
Summary
This summary is machine-generated.

Microarray Retriever simplifies accessing gene expression data from major repositories like Gene Expression Omnibus (GEO) and ArrayExpress. This tool facilitates powerful meta-analysis studies by enabling complex searches and data retrieval.

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Area of Science:

  • Bioinformatics
  • Genomics
  • Computational Biology

Background:

  • Public microarray repositories such as Gene Expression Omnibus (GEO) and ArrayExpress are experiencing significant growth.
  • This expansion facilitates large-scale meta-analysis studies by enabling the combination of expression data from numerous individual studies.
  • Efficient data retrieval is crucial for maximizing the utility of these growing public data resources.

Purpose of the Study:

  • To develop a tool that simplifies searching and retrieving microarray data from both GEO and ArrayExpress simultaneously.
  • To enable researchers to perform complex queries across multiple datasets.
  • To facilitate the download of microarray data in a structured archive format for published articles.

Main Methods:

  • Development of the Microarray Retriever web-based tool.
  • Implementation of simultaneous access to GEO and ArrayExpress databases.
  • Integration of functionality for complex querying and data retrieval for published articles.
  • Creation of a structured archive for downloaded data.

Main Results:

  • The Microarray Retriever tool provides simultaneous access to GEO and ArrayExpress.
  • Users can perform complex searches across both repositories.
  • Microarray data for published articles can be efficiently retrieved.
  • Data is downloaded in a single, structured archive.

Conclusions:

  • Microarray Retriever enhances the accessibility and usability of public gene expression data.
  • The tool supports and facilitates meta-analysis studies by streamlining data retrieval.
  • This resource is valuable for researchers in genomics and bioinformatics seeking to leverage large-scale expression datasets.