Unit

UNIT 9.5 Using Apollo to Browse and Edit Genome Annotations

  1. Sima Misra,
  2. Nomi Harris

Published Online: 1 JAN 2006

DOI: 10.1002/0471250953.bi0905s12

Current Protocols in Bioinformatics

Current Protocols in Bioinformatics

How to Cite

Misra, S. and Harris, N. 2006. Using Apollo to Browse and Edit Genome Annotations. Current Protocols in Bioinformatics. 12:9.5:9.5.1–9.5.28.

Author Information

  1. University of California, Berkeley, California

Publication History

  1. Published Online: 1 JAN 2006
  2. Published Print: DEC 2005

Abstract

An annotation is any feature that can be tied to genomic sequence, such as an exon, transcript, promoter, or transposable element. As biological knowledge increases, annotations of different types need to be added and modified, and links to other sources of information need to be incorporated, to allow biologists to easily access all of the available sequence analysis data and design appropriate experiments. The Apollo genome browser and editor offers biologists these capabilities. Apollo can display many different types of computational evidence, such as alignments and similarities based on BLAST searches (units Unavailable & Unavailable ), and enables biologists to utilize computational evidence to create and edit gene models and other genomic features, e.g., using experimental evidence to refine exon-intron structures predicted by gene prediction algorithms. This protocol describes simple ways to browse genome annotation data, as well as techniques for editing annotations and loading data from different sources.

Keywords:

  • Genome;
  • Sequence;
  • Annotation;
  • Browser;
  • Editor