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A gene is a stretch of DNA that serves as the blueprint for functional RNAs and proteins. Since DNA is comprised  of nucleotides and proteins are comprised of amino acids, a mediator is required to convert the information encoded in DNA into proteins. This mediator is the messenger RNA (mRNA). mRNA copies the blueprint from DNA by a process called transcription. In eukaryotes, transcription occurs in the nucleus by complementary base-pairing with the DNA template. The mRNA is then...
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Gene expression is the process in which DNA directs the synthesis of functional products, that is, proteins. Cells can regulate gene expression at various stages. It allows organisms to generate different cell types and enables cells to adapt to internal and external factors.
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SPIEDw: a searchable platform-independent expression database web tool.

Gareth Williams1

  • 1Wolfson Centre for Age-Related Diseases, King's College London, London Bridge, London SE1 1UL, UK. gareth.2.williams@kcl.ac.uk.

BMC Genomics
|November 9, 2013
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Summary
This summary is machine-generated.

SPIEDw is a web tool for querying gene expression data, enhancing the previous SPIED resource. It offers a larger database, improved search, and simplified analysis for researchers.

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Area of Science:

  • Bioinformatics
  • Genomics
  • Computational Biology

Background:

  • SPIEDw facilitates rapid, quantitative querying of public gene expression data.
  • Transcriptional profiles are valuable for comparing biological states across experiments.

Purpose of the Study:

  • To present SPIEDw, an enhanced web-based tool for accessing and analyzing gene expression data.
  • To improve upon the original SPIED resource with expanded data and advanced features.

Main Methods:

  • Compilation of over 200,000 gene expression experiments into a searchable database.
  • Inclusion of Agilent and Illumina technologies, doubling the experiment coverage.
  • Development of an enhanced search algorithm for efficient web-based querying.

Main Results:

  • SPIEDw now includes data from over 200,000 experiments across multiple species and platforms.
  • The tool features an improved search algorithm for faster querying.
  • An abridged dataset for rapid searching and gene set enrichment analysis is available.

Conclusions:

  • SPIEDw is user-friendly, requiring no specialized microarray analysis expertise.
  • The tool provides straightforward interpretation of results.
  • SPIEDw aims to broaden access to gene expression data mining for researchers.