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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...
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...
Coordination of Gene Expression Processes in Bacteria01:29

Coordination of Gene Expression Processes in Bacteria

The DNA replication, transcription, and translation processes are intricately coupled in bacteria, allowing efficient gene expression and rapid protein synthesis. While this physical and functional coordination is advantageous, it introduces challenges that bacteria overcome through specific regulatory mechanisms.Coupling of Replication, Transcription, and TranslationThe coupling of replication, transcription, and translation is a hallmark of bacterial gene expression. As the replisome unwinds...
Combinatorial Gene Control02:33

Combinatorial Gene Control

Combinatorial gene control is the synergistic action of several transcriptional factors to regulate the expression of a single gene. The absence of one or more of these factors may lead to a significant difference in the level of gene expression or repression.
The expression of more than 30,000 genes is controlled by approximately 2000-3000 transcription factors. This is possible because a single transcription factor can recognize more than one regulatory sequence. The specificity in gene...
Ribosome Profiling02:24

Ribosome Profiling

Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique helps...

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Related Experiment Video

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Real-time Analysis of Transcription Factor Binding, Transcription, Translation, and Turnover to Display Global Events During Cellular Activation
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Real-time Analysis of Transcription Factor Binding, Transcription, Translation, and Turnover to Display Global Events During Cellular Activation

Published on: March 7, 2018

Identifying pathways of coordinated gene expression.

Timothy Hancock1, Ichigaku Takigawa, Hiroshi Mamitsuka

  • 1Bioinformatics Center, Institute for Chemical Research, Kyoto University, Uji, Japan. timhancock@kuicr.kyoto-u.ac.jp

Methods in Molecular Biology (Clifton, N.J.)
|November 30, 2012
PubMed
Summary
This summary is machine-generated.

This study presents a framework to identify functional metabolic pathways using gene expression data. It combines metabolic networks with microarray analysis for pathway discovery in biological systems.

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Area of Science:

  • Systems biology
  • Bioinformatics
  • Metabolic network analysis

Background:

  • Understanding biological network functions requires identifying coordinated genetic pathways.
  • Metabolic networks, sourced from online databases, are complex and can obscure pathway interactions.
  • Existing methods struggle to pinpoint specific interacting pathways within large metabolic structures.

Purpose of the Study:

  • To outline a comprehensive framework for identifying metabolic pathways linked to observed biological phenomena.
  • To provide a tutorial for applying this framework to any metabolic network and microarray dataset.

Main Methods:

  • Overlaying microarray expression data onto complete metabolic networks.
  • Employing novel pathway ranking algorithms.
  • Utilizing clustering and classification algorithms to extract functional components.

Main Results:

  • The framework effectively illuminates functional metabolic pathways.
  • The methodology allows for the extraction of key pathway components from complex networks.
  • Demonstrates a practical approach for integrating gene expression and metabolic network data.

Conclusions:

  • The developed framework provides a robust method for dissecting metabolic network functions.
  • This approach enhances the understanding of biological network responses by identifying critical pathways.
  • The tutorial format facilitates broader application in systems biology research.