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Related Concept Videos

What is Gene Expression?01:36

What is Gene Expression?

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 processed and...
What is Gene Expression?01:42

What is Gene Expression?

Overview
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.
Genetic Information Flows from DNA to RNA to Protein
A gene is a stretch of DNA that serves as the blueprint for functional RNAs and proteins. Since DNA is made up of nucleotides and proteins consist of amino...
What is Gene Expression?01:42

What is Gene Expression?

Overview
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.
Genetic Information Flows from DNA to RNA to Protein
A gene is a stretch of DNA that serves as the blueprint for functional RNAs and proteins. Since DNA is made up of nucleotides and proteins consist of amino...
Cell Specific Gene Expression01:58

Cell Specific Gene Expression

Multicellular organisms contain a variety of structurally and functionally distinct cell types, but the DNA in all the cells originated from the same parent cells. The differences in the cells can be attributed to the differential gene expression. Liver cells, whose functions include detoxification of blood, production of bile to metabolize fats, and synthesis of proteins essential for metabolism, must express a specific set of genes to perform their functions. Gene expression also varies with...
Cell Specific Gene Expression01:58

Cell Specific Gene Expression

Multicellular organisms contain a variety of structurally and functionally distinct cell types, but the DNA in all the cells originated from the same parent cells. The differences in the cells can be attributed to the differential gene expression. Liver cells, whose functions include detoxification of blood, production of bile to metabolize fats, and synthesis of proteins essential for metabolism, must express a specific set of genes to perform their functions. Gene expression also varies with...
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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Analyzing Tumor Gene Expression Factors with the CorExplorer Web Portal
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Managing and querying gene expression data using Curray.

Hasan Jamil1, Aminul Islam

  • 1Department of Computer Science, Wayne State University, Michigan, USA. jamil@cs.wayne.edu.

BMC Proceedings
|May 11, 2011
PubMed
Summary
This summary is machine-generated.

We introduce Curray, a Custom Microarray query language, for managing and querying gene expression data. This platform-independent system supports diverse analyses and integrates with distributed resources for enhanced biological insights.

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Area of Science:

  • Bioinformatics
  • Computational Biology
  • Genomics

Background:

  • Gene expression data provides valuable biological insights but requires sophisticated management and querying.
  • Current challenges lie in integrating diverse expression profiles with experimental annotations.
  • Existing approaches often lack flexibility for complex, experiment-specific analyses.

Purpose of the Study:

  • To develop a novel gene expression data management and querying system.
  • To introduce Curray (Custom Microarray query language), a platform-independent query language.
  • To facilitate pre-expression, expression, and post-expression data analysis.

Main Methods:

  • Developed Curray, a general-purpose, platform-independent query language for gene expression data.
  • Incorporated features for designing expression analysis pipelines using conceptual language constructs.
  • Enabled user-defined functions as first-class language features for extended analysis capabilities.
  • Integrated the system with distributed web resources via the LifeDB system.

Main Results:

  • Curray supports online expression data analysis using distributed resources.
  • The language facilitates flexible modeling and customization through declarative and extensible features.
  • User-defined functions allow for unlimited, customized analysis, overcoming language limitations.
  • The system reduces the impedance mismatch between different analysis systems.

Conclusions:

  • The Curray system allows users to conceptualize expression data independently of underlying chip technologies.
  • It enables transparent data navigation from raw data to standards like MIAME and MAGE-ML.
  • Seamless integration with distributed web resources is achieved through the LifeDB system.
  • This approach enhances the utility and accessibility of gene expression data for research.