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Related Concept Videos

Cis-regulatory Sequences02:02

Cis-regulatory Sequences

Cis-regulatory sequences are short fragments of non-coding DNA that are present on the same chromosomes as the genes that they regulate. These fragments serve as binding sites for transcriptional regulators, proteins that are responsible for controlling gene transcription and differential gene expression across cell types in eukaryotes. Cis-regulatory sequences can be close to the gene of interest or thousands of bases away in the DNA sequence; however, those sequences that are further away are...
Cis-regulatory Sequences02:02

Cis-regulatory Sequences

Cis-regulatory sequences are short fragments of non-coding DNA that are present on the same chromosomes as the genes that they regulate. These fragments serve as binding sites for transcriptional regulators, proteins that are responsible for controlling gene transcription and differential gene expression across cell types in eukaryotes. Cis-regulatory sequences can be close to the gene of interest or thousands of bases away in the DNA sequence; however, those sequences that are further away are...
General Transcription Factors01:30

General Transcription Factors

Tissue-specific transcription factors contribute to diverse cellular functions in mammals. For example, the gene for beta globin, a major component of hemoglobin, is present in all cells of the body. However, it is only expressed in red blood cells because the transcription factors that can bind to the promoter sequences of the beta globin gene are only expressed in these cells. Tissue-specific transcription factors also ensure that mutations in these factors may impair only the function of...
Reporter Genes02:11

Reporter Genes

Reporter genes are a type of protein-coding gene that are often tagged to a gene of interest. Once inside a target cell, reporter genes usually produce visually identifiable characteristics like fluorescence and luminescence when expressed along with the gene of interest. Thus, reporter genes “report” the presence or absence of genes of interest in an organism, determine the gene expression pattern, or track the physical location of a DNA segment or protein in the cell.
Commonly used reporter...
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...
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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Related Experiment Video

Updated: Jul 6, 2026

Using SCOPE to Identify Potential Regulatory Motifs in Coregulated Genes
07:55

Using SCOPE to Identify Potential Regulatory Motifs in Coregulated Genes

Published on: May 31, 2011

Motif discovery in tissue-specific regulatory sequences using directed information.

Arvind Rao1, Alfred O Hero, David J States

  • 1Departments of Electrical Engineering and Computer Science and Bioinformatics, University of Michigan, Ann Arbor, MI 48109, USA.

EURASIP Journal on Bioinformatics & Systems Biology
|March 15, 2008
PubMed
Summary

This study introduces a novel bioinformatics approach for discovering gene regulatory motifs. The method uses directed information and support vector machines to identify tissue-specific regulatory elements, aiding in understanding gene expression in development and disease.

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Last Updated: Jul 6, 2026

Using SCOPE to Identify Potential Regulatory Motifs in Coregulated Genes
07:55

Using SCOPE to Identify Potential Regulatory Motifs in Coregulated Genes

Published on: May 31, 2011

DNA-affinity-purified Chip (DAP-chip) Method to Determine Gene Targets for Bacterial Two component Regulatory Systems
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Exploring Sequence Space to Identify Binding Sites for Regulatory RNA-Binding Proteins
11:34

Exploring Sequence Space to Identify Binding Sites for Regulatory RNA-Binding Proteins

Published on: August 9, 2019

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Genomics

Background:

  • Identifying functional regulatory elements controlling gene expression is complex.
  • Tissue-specific gene expression involves numerous motifs with unknown functions.
  • Understanding these motifs is crucial for biological processes like development and disease.

Purpose of the Study:

  • To develop a novel approach for motif discovery, focusing on tissue specificity.
  • To identify novel motifs that distinguish tissue-specific regulatory regions.
  • To create a framework for analyzing motif function in gene regulation.

Main Methods:

  • Utilizing directed information for classification-constrained motif discovery.
  • Employing a support vector machine (SVM) classifier with selected features.
  • Applying the approach to identify tissue-specific gene regulatory elements.

Main Results:

  • Discovery of several novel motifs with potential roles in tissue-specific gene expression.
  • Demonstration that these motifs can discriminate between tissue-specific and non-specific regulatory regions.
  • Development of a principled framework for prospective motif examination.

Conclusions:

  • The proposed method effectively identifies discriminatory motifs for tissue-specific gene regulation.
  • This approach integrates sequence and expression data for a comprehensive analysis.
  • The discovered motifs warrant further experimental validation for their regulatory roles.