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Related Concept Videos

Regulation of Expression at Multiple Steps01:23

Regulation of Expression at Multiple Steps

The gene expression in cells is regulated at different stages: (i) transcription, (ii) RNA processing, (iii) RNA localization, and (iv) translation. Transcriptional regulation is mediated by regulatory proteins such as transcription factors, activators, or repressors—these control gene expression by initiating or inhibiting the transcription of genes. Once a precursor or pre-mRNA is produced, it undergoes post-transcriptional modification, including 5' capping, splicing, and the addition of a...
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?01:36

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...
Regulation of Expression Occurs at Multiple Steps02:24

Regulation of Expression Occurs at Multiple Steps

Gene expression can be regulated at almost every step from gene to protein. Transcription is the step that is most commonly regulated. This involves the binding of proteins to short regulatory sequences on the DNA. This association can either promote or inhibit the transcription of a gene associated with the respective sequence.
Transcription results in the generation of precursor (pre-mRNA) that consists of both exons and introns, which needs further processing before being translated to a...
Regulation of Expression Occurs at Multiple Steps02:24

Regulation of Expression Occurs at Multiple Steps

Gene expression can be regulated at almost every step from gene to protein. Transcription is the step that is most commonly regulated. This involves the binding of proteins to short regulatory sequences on the DNA. This association can either promote or inhibit the transcription of a gene associated with the respective sequence.
Transcription results in the generation of precursor (pre-mRNA) that consists of both exons and introns, which needs further processing before being translated to a...

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A Pathway Association Study Tool for GWAS Analyses of Metabolic Pathway Information
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Published on: July 1, 2020

Evaluating between-pathway models with expression data.

B J Hescott1, M D M Leiserson, L J Cowen

  • 1Department of Computer Science, Tufts University, Medford, Massachusetts 02155, USA. hescott@cs.tufts.edu

Journal of Computational Biology : a Journal of Computational Molecular Cell Biology
|April 10, 2010
PubMed
Summary
This summary is machine-generated.

Between-pathway models (BPMs) reveal compensatory gene relationships. Integrating gene expression data from knockout experiments enhances the identification and refinement of these biological pathways.

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Area of Science:

  • Systems Biology
  • Genomics
  • Bioinformatics

Background:

  • Between-pathway models (BPMs) represent pairs of potentially redundant biological pathways.
  • Identifying functional relationships within and between these pathways is crucial for understanding complex biological systems.

Purpose of the Study:

  • To investigate the utility of integrating microarray gene expression data from knockout experiments with BPMs.
  • To identify compensatory functional relationships between genes in different BPM pathways.
  • To evaluate and potentially refine existing BPMs.

Main Methods:

  • Utilized microarray gene expression data from knockout experiments.
  • Applied computational methods to analyze gene expression patterns in the context of BPMs.
  • Evaluated the quality of BPMs from four distinct biological studies.

Main Results:

  • Demonstrated that integrating gene expression data enables the identification of compensatory functional relationships between genes from different pathways within BPMs.
  • Successfully evaluated the quality of existing BPMs.
  • Provided a framework for extending the methodology to improve pathway refinement.

Conclusions:

  • Gene expression data from knockout experiments is a valuable resource for uncovering functional relationships in between-pathway models.
  • The proposed approach enhances the understanding of pathway redundancy and compensation.
  • The methods offer potential for improving the accuracy and utility of biological pathway databases.