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Genome Annotation and Assembly03:36

Genome Annotation and Assembly

The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.
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Epistasis Analysis

Although Mendel chose seven unrelated traits in peas to study gene segregation, most traits involve multiple gene interactions that create a spectrum of phenotypes. When the interaction of various genes or alleles at different locations influences a phenotype, this is called epistasis. Epistasis often involves one gene masking or interfering with the expression of another (antagonistic epistasis). Epistasis often occurs when different genes are part of the same biochemical pathway. The...
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cAMP-dependent Protein Kinase Pathways

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Related Experiment Video

Updated: Jul 10, 2026

Using Human Differentially Expressed Gene Lists to Perform Downstream Pathway Enrichment Analysis and Target Prioritization
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Using Human Differentially Expressed Gene Lists to Perform Downstream Pathway Enrichment Analysis and Target Prioritization

Published on: October 3, 2025

Gene annotation and pathway mapping in KEGG.

Kiyoko F Aoki-Kinoshita, Minoru Kanehisa

    Methods in Molecular Biology (Clifton, N.J.)
    |November 21, 2007
    PubMed
    Summary

    KEGG is a comprehensive database for biological systems, offering tools like KEGG GENES, KEGG PATHWAY, and KEGG BRITE for genomic analysis and pathway reconstruction.

    Area of Science:

    • Bioinformatics
    • Systems Biology
    • Genomics

    Background:

    • KEGG (Kyoto Encyclopedia of Genes and Genomes) is a vital database for understanding biological systems.
    • It integrates genomic, chemical, and network information.

    Purpose of the Study:

    • To introduce the KEGG database and its analytical tools.
    • To highlight the utility of KEGG GENES, KEGG PATHWAY, and KEGG BRITE.
    • To demonstrate the application of the KEGG Automatic Annotation Server (KAAS).

    Main Methods:

    • Utilizing KEGG GENES for genomic data.
    • Applying KEGG PATHWAY for network analysis.
    • Employing KEGG BRITE for orthology and reaction classification.
    • Leveraging KAAS for automated gene annotation and pathway mapping.

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    Annotation of Plant Gene Function via Combined Genomics, Metabolomics and Informatics

    Published on: June 17, 2012

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    Published on: October 3, 2025

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    Annotation of Plant Gene Function via Combined Genomics, Metabolomics and Informatics

    Published on: June 17, 2012

    Main Results:

    • KEGG provides categorized resources for genomic, chemical, and interaction data.
    • KEGG BRITE offers classification systems for orthologs, reactions, compounds, and drugs.
    • KAAS facilitates automatic gene annotation and pathway map generation.

    Conclusions:

    • KEGG is an essential resource for comprehensive genomic analysis.
    • The integrated tools within KEGG support pathway reconstruction and biological system understanding.
    • KEGG facilitates automated annotation and visualization of biological networks.