Education - Tools & Tutorials

Educational Resources


Annotation

Protein Functional Annotation
This guide describes the different types of attributes that make up a protein's functional annotation and details the types of computation searches used to predict them.

Manatee

Manatee Tutorial
A printable, step-by-step guide on how to use Manatee.

Manatee Demo
Click here and you will be automatically logged into a demo site for Manatee.

Manatee Annotation Exercise worksheet
Used as part of the annotation class, this example form is used to track your responses when predicting different annotation assertions for a few example genes.

Web Tools


Manatee

Manatee is a web-based tool used to perform manual functional annotation. It has been specifically designed to optimize the ability of curators to evaluate all available sequence-based and experimental data to assign the best possible annotation to a given gene product. Manatee allows users to view, modify, and store annotation through interactions with an underlying relational database where all of the information is stored. Manatee supports the storage of multiple types of functional annotation including protein names, gene symbols, EC numbers, Gene Ontology terms, and associated supporting evidence. In addition, Manatee provides summary views of statistics and information from the genome as a whole.

Ergatis

Ergatis is a web-based utility used to create, run, and monitor reusable computational analysis pipelines, utilizing the Workflow engine. It contains pre-built components for common bioinformatics analysis tasks. Ergatis is under active development at IGS and is in use at several sequencing centers including the J Craig Venter Institute (JCVI), and the Broad Institute.

Sybil

Sybil is a web-based tool for visualizing and mining comparative genomic data. Powered by a Chado relational database, Sybil provides a rich set of interfaces for browsing and analyzing data. The tool has been implemented for a variety of organisms both prokaryotes and eukaryotes. Sybil allows users to search for genes or gene clusters of interest and visualize their genomic context. The various displays provide multiple types of genomic comparisons for in-depth data mining, data interrogation from multiple angles, and generation of publication-ready figures. Sybil also gives users the ability to identify core and accessory genes from all or a subset of the available genomes. View Sybil Screencasts.