Drosophila Annotation Goals: Final Presentation and Written Reports
This document describes the primary annotation goals to be included in the final oral presentation and written report for students enrolled in the Bio4342 course at WU.
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Chris Shaffer
Annotation Instruction Sheet
This document is a more in depth description of the evidence based annotation technique used by the GEP. This document is designed to complement and extend the basic technique described in the Annotation for D. virilis PowerPoint.
Annotation for D. virilis
This is a PowerPoint presentation describing the recommended strategies for annotating a D. virilis fosmid. The homology-based annotation strategy should also be applicable to annotation of D. erecta and D. mojavensis projects.
Annotation of Drosophila
This PowerPoint presentation describes the recommended annotation strategy for Drosophila projects. The presentation provides an overview of the goals of the GEP annotation project, an introduction to NCBI BLAST, web databases, and the issue of reading frames and phase.
F Element Project: Annotation Report
This document is the revised annotation report that GEP students will use to report their annotation results to the GEP.
Simple Annotation Problem
This worksheet will guide you through a series of basic steps that have been found to work well for annotation of species closely related to Drosophila melanogaster. It provides a technique that can also be the foundation of annotation in other, more divergent species but in those cases other special techniques will probably be needed.
Annotation of Drosophila Primer
This PowerPoint presentation provides a brief primer on the recommended annotation strategy for Drosophila projects. The presentation provides an overview of the goals of the GEP annotation project, an introduction to RNA-Seq, web databases, and a discussion on the phases of the splice donor and acceptor sites.
Annotation Unix Worksheet
Exercise that uses UNIX tools (command-line BLAST and RepeatMasker) for gene annotations.
Introduction to UNIX Exercise
A simple exercise on using simple Unix commands to navigate to different directories and manipulate files.
Unix Commands: Quick Reference Sheet
A Unix reference sheet for commonly used Unix commands.
