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Related Concept Videos

Cell Specific Gene Expression01:58

Cell Specific Gene Expression

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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...
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Other than maintaining genome stability via DNA repair, homologous recombination plays an important role in diversifying the genome. In fact, the recombination of sequences forms the molecular basis of genomic evolution. Random and non-random permutations of genomic sequences create a library of new amalgamated sequences. These newly formed genomes can determine the fitness and survival of cells. In bacteria, homologous and non-homologous types of recombination lead to the evolution of new...
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Gene families consist of groups of genes proposed to have originated from a common ancestor. Typically these arise through events in which a gene or genes are mistakenly duplicated during cell division. Unlike their parent genes (which are subject to selection pressure to maintain function), these gene copies do not need to preserve their sequences and may evolve at a relatively faster rate.
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Related Experiment Video

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A Protocol for Using Gene Set Enrichment Analysis to Identify the Appropriate Animal Model for Translational Research
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TissueEnrich: Tissue-specific gene enrichment analysis.

Ashish Jain1,2, Geetu Tuteja1,2

  • 1Bioinformatics and Computational Biology, Iowa State University, Ames, IA, USA.

Bioinformatics (Oxford, England)
|October 23, 2018
PubMed
Summary

TissueEnrich identifies tissue-specific gene enrichment from gene expression data. This tool aids in assigning tissue identities to cell clusters and stem cells.

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Area of Science:

  • Genomics
  • Bioinformatics
  • Computational Biology

Background:

  • RNA-sequencing (RNA-Seq) analysis yields gene lists for functional inference.
  • Existing tools focus on biological process enrichment, not tissue specificity.

Purpose of the Study:

  • To develop TissueEnrich, a novel tool for identifying tissue-specific gene enrichment.
  • To enable the assignment of tissue identities to gene sets.

Main Methods:

  • Developed the TissueEnrich tool for calculating tissue-specific gene enrichment.
  • Applied TissueEnrich to gene sets from RNA-Seq data.

Main Results:

  • TissueEnrich successfully identifies tissue-specific gene enrichment.
  • Demonstrated utility in assigning tissue identities to single cell clusters.
  • Showcased application in classifying differentiated embryonic stem cells.

Conclusions:

  • TissueEnrich addresses the need for tissue-specific gene enrichment analysis.
  • Provides a valuable tool for interpreting gene expression data in a tissue context.