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Related Concept Videos

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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Light Acquisition

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Genomics

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Evolutionary Relationships through Genome Comparisons

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Synthetic Biology02:55

Synthetic Biology

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Annotation of Plant Gene Function via Combined Genomics, Metabolomics and Informatics
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Published on: June 17, 2012

A community-based annotation framework for linking solanaceae genomes with phenomes.

Naama Menda1, Robert M Buels, Isaak Tecle

  • 1Department of Plant Breeding and Genetics, and Boyce Thompson Institute for Plant Research, Cornell University, Ithaca, New York 14853, USA.

Plant Physiology
|June 10, 2008
PubMed
Summary

The SOL Genomics Network (SGN) developed community annotation tools to enhance biological data curation for genotypes and phenotypes. This approach successfully expanded data management capacity by engaging researchers while maintaining editorial control.

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Area of Science:

  • Genomics
  • Bioinformatics
  • Plant Science

Background:

  • Exponential growth of biological data necessitates improved infrastructure for organization and contextualization.
  • Model organism databases (MODs) traditionally rely on in-house curators for genome and phenome annotation.
  • The SOL Genomics Network (SGN) offers a clade-oriented database (COD) for scalable, comparative biological information management.

Purpose of the Study:

  • To describe the development and implementation of community annotation tools for the SOL Genomics Network (SGN).
  • To expand curatorial capacity for genotypes and phenotypes by leveraging external researcher contributions.
  • To provide a scalable and comparative framework for biological information within the Solanaceae research community.

Main Methods:

  • Development of community annotation tools integrated into the SOL Genomics Network (SGN) platform.
  • Delegation of genotype and phenotype curation tasks to qualified external researchers.
  • Maintenance of full editorial control by in-house curators throughout the annotation process.

Main Results:

  • Successful implementation of community annotation tools, leading to expanded curatorial capacity.
  • Strong and continuous engagement from the Solanaceae research community since project inception in late 2006.
  • Plans to extend the SGN framework to include additional plant taxa based on successful adoption.

Conclusions:

  • Community annotation tools offer a scalable solution for managing the increasing volume of biological data.
  • Collaborative curation models can effectively augment in-house expertise while ensuring data quality.
  • The SGN's approach demonstrates a successful strategy for community-driven biological data management and annotation.