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Welcome to the Dendrome Project!

Icon 05 TreeGenes

Sequence Resources

Summary by Genus

Colleague Directory

Colleagues Organizations

Species Database

Forest Trees

Literature Database

Search Literature

Transcriptome Database

Search Transcriptome Transcriptome Summary

Protein Database

Search Proteins Protein Summary

Expression Studies

Search Expression Expr. Studies Summary

DiversiTree

Genotype, Phenotype and Sequence

Comparative Mapping Database

Published Maps Maps Recently Submitted Search Cmap

GMOD: Genome Browser

GBrowse Portal

Submissions

Submit to TreeGenes

Icon 03 Updates

Douglas-fir and Pinus taeda v1.0 Transcriptomes loaded into GBrowse | Literature pipeline recently updated to integrate sequence data | DiversiTree custom TreeGenes interface expanded to deliver phenotype data |

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TreeGenes :: Overview

Welcome to the TreeGenes database! TreeGenes is a forest tree genome database for conifers. Both automatic and manual curation are performed to combine and interrelate information on EST sequences, SNPs, genetic maps, molecular markers, phenotypes and QTL, and publications. A full summary of our current genomic resources by genus and species can be found here. Comparative maps of key species including Loblolly Pine, Douglas-Fir, Norway Spruce, Monterey Pine, and Maritime Pine are anchored to each other by a set of curated correspondences as well as by sequence similarity of ESTs and markers. We use controlled vocabularies (ontologies) to describe genes which permits users to query and make comparisons across taxonomic groups. All raw and integrated information, as well as software developed as part of this project, is available for use without restriction.

TreeGenes Schema

TreeGenes is housed in an PostgreSQL 8.1.4 database that is fed validated information from a variety of mysql internal and test databases. The information is presented to the research community through a web-based graphical interface environment. Data submission is critical to the value of this resource.

Members of the conifer research community are encouraged to submit sequence data, genetic maps, and association study data through the literature object. Here, users can supplement their publication with raw map data, EST data, and other sequence data. This information will be curated and propagated through the existing database structure.

How to Reference TreeGenes:
Jill L. Wegrzyn, Jennifer M. Lee, Brandon R. Tearse, and David B. Neale, "TreeGenes: A Forest Tree Genome Database," International Journal of Plant Genomics, vol. 2008, Article ID 412875, 7 pages, 2008. doi:10.1155/2008/412875