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Comprehensive Workflow for the Genome-wide Identification and Expression Meta-analysis of the ATL E3 Ubiquitin Ligase Gene Family in Grapevine
Published on: December 22, 2017
A semi-automated genome annotation comparison and integration scheme.
Zhe Liu1, Hongwu Ma, Igor Goryanin
1Computational Systems Biology and Bioinformatics, School of Informatics, University of Edinburgh, Informatics Forum, 10 Crichton Street, Edinburgh EH8 9AB, UK.
BMC Bioinformatics
|June 4, 2013
Summary
This study introduces a semi-automated scheme to compare and integrate genome functional annotations from multiple services, significantly reducing manual curation efforts. The approach effectively achieves consensus functional annotations, streamlining genome analysis.
Area of Science:
- Bioinformatics
- Genomics
- Computational Biology
Background:
- Genome annotation services yield inconsistent functional results.
- A consensus mechanism for integrating diverse annotations is needed.
Purpose of the Study:
- To develop a semi-automated scheme for comparing and obtaining consensus genome functional annotations.
- To reduce the manual workload in genome annotation.
Main Methods:
- Utilized four automated annotation services for the Arcobacter butzleri ED-1 genome.
- Employed gene synonym lists and information retrieval techniques for annotation comparison.
- Designed a decision tree for consensus annotation determination.
Main Results:
- Automatically compared 87% of functional annotations for Arcobacter butzleri ED-1.
- Automatically determined 87% of functional annotations, leaving 13% for manual curation.
- Achieved an average of 73% automatic comparison and 86% automatic determination across six diverse genomes.
Conclusions:
- Proposed an effective semi-automatic scheme for genome functional annotation comparison and determination.
- Significantly reduces manual effort in genome annotation.
- Applicable to genome annotation comparison and re-annotation projects without requiring specific biological knowledge.
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