TreeGenes: A forest tree genome database.

International Journal of Plant Genomics
Jill L WegrzynDavid B Neale

Abstract

The Dendrome Project and associated TreeGenes database serve the forest genetics research community through a curated and integrated web-based relational database. The research community is composed of approximately 2 000 members representing over 730 organizations worldwide. The database itself is composed of a wide range of genetic data from many forest trees with focused efforts on commercially important members of the Pinaceae family. The primary data types curated include species, publications, tree and DNA extraction information, genetic maps, molecular markers, ESTs, genotypic, and phenotypic data. There are currently ten main search modules or user access points within this PostgreSQL database. These access points allow users to navigate logically through the related data types. The goals of the Dendrome Project are to (1) provide a comprehensive resource for forest tree genomics data to facilitate gene discovery in related species, (2) develop interfaces that encourage the submission and integration of all genomic data, and to (3) centralize and distribute existing and novel online tools for the research community that both support and ease analysis. Recent developments have focused on increasing data content, function...Continue Reading

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Citations

Oct 1, 2011·Database : the Journal of Biological Databases and Curation·Stephen P FicklinDoreen Main
Jul 19, 2011·BMC Genomics·Noé Fernández-PozoM Gonzalo Claros
Sep 12, 2013·PloS One·Jill L WegrzynKristian A Stevens
Mar 19, 2014·Plant Biotechnology Reports·Sook Jung, Dorrie Main
May 8, 2014·Antioxidants & Redox Signaling·Julia KrasenskyClaudia Jonak
Feb 26, 2013·Molecular Ecology Resources·Hans A Vasquez-GrossJill L Wegrzyn
Apr 18, 2013·Molecular Phylogenetics and Evolution·Delphine GrivetSantiago C González-Martínez
Nov 2, 2016·Nucleic Acids Research·Sushma NaithaniPankaj Jaiswal
Nov 26, 2014·Journal of Experimental Botany·Lara LombardiHilary J Rogers
Apr 26, 2015·Journal of Experimental Botany·Sara TrevisanSilvia Quaggiotti
Mar 15, 2013·AoB Plants·Ramiris C S MoraesFernanda A Gaiotto
Jan 1, 2012·Biology·Manuel Gonzalo ClarosNoé Fernández-Pozo
Oct 15, 2019·The Plant Journal : for Cell and Molecular Biology·Kathrin M SeibtTony Heitkam
Jun 18, 2020·G3 : Genes - Genomes - Genetics·Jaakko S TyrmiTanja Pyhäjärvi
Jun 26, 2013·Genome Biology·David B NealeJill L Wegrzyn
Nov 8, 2017·Molecular Ecology·Delphine GrivetSantiago C González-Martínez
Jan 29, 2020·Evolutionary Applications·Tanja PyhäjärviOuti Savolainen
Apr 20, 2019·Frontiers in Plant Science·Sanushka NaidooCaryn N Oates
Jul 6, 2020·Database : the Journal of Biological Databases and Curation·Shawna SpoorStephen P Ficklin
Feb 6, 2020·Proceedings of the National Academy of Sciences of the United States of America·JaeJin Choi, Sung-Hou Kim
Sep 22, 2018·Database : the Journal of Biological Databases and Curation·Taylor FalkJill L Wegrzyn
Sep 22, 2018·Database : the Journal of Biological Databases and Curation·Lisa HarperDoreen Main
Oct 19, 2020·Molecular Ecology Resources·Fernando Mora-MárquezUnai López de Heredia
Jun 3, 2021·International Journal of Molecular Sciences·Cristina Zamora-BallesterosJorge Martín-García

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Methods Mentioned

BETA
PCR

Software Mentioned

Cmap
BLAST
Tracefiles
Generic Model Organism Database ( GMOD )
Dendrome Plone
Linux
PostgreSQL
FASTA
Germinate
Perl

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