Plants

In this section are links specific to plant resources including those for Maize and Arabidopsis.

Found 48 links

Displaying 15 links

Adabidopsis eFP BrowserDatabase Content

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An "Electronic Fluorescent Pictograph" browser for exploring and analyzing large-scale biological data sets (using example of Arabidopsis). Explores microarray and other data for hypothesis generation. eFP Browser engine paints data from large-scale data sets onto pictographic representations of the experimental samples used to generate the data sets.

agriGOTool Content

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agriGO is an integrated gene ontology analysis toolkit for the agriculture community. Supported organisms and gene identifiers were expanded over EasyGO tool, and several tools for predicting gene function are included.

links directory index: 63
TitlePublication YearGoogle Scholar Citation Count
agriGO: a GO analysis toolkit for the agricultural community201063

Arabidopsis EnsemblDatabase Content

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Access to the Arabidopsis thaliana genome through the Ensembl user interface. There are two independent assemblies available, one from TIGR and one from MIPS. Includes the collection of NASC insertion mutants.

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Bio-Array Resource (BAR)Tool Content

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The Bio-Array Resource for Plant Biology: user-friendly web-based tools for working with functional genomics and other data. Most are designed with the plant (mainly Arabidopsis) reseacher in mind, but a couple of them can be useful to the wider research community.

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Blast2GOTool Content

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The Blast2GO suite is a comprehensive bioinformatics tool for functional annotation of plant sequences and data mining on the resulting annotations, primarily based on the gene ontology (GO) vocabulary. The application supports InterPro, enzyme codes, KEGG pathways, GO direct acyclic graphs (DAGs), and GOSlim.

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DATFDatabase Content

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The Database of Arabidopsis Transcription Factors (DATF) contains information of more than 1800 known and predicted transcription factors for Arabidopsis.

links directory index: 164
TitlePublication YearGoogle Scholar Citation Count
DATF: a database of Arabidopsis transcription factors2005164

DOE Joint Genome Institute Genome PortalDatabase Content

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The Joint Genome Institute Genome Portal contains browseable and blastable genome assemblies for several organisms, including Pufferfish, Frog, and Sea squirt.

DRTFDatabase Content

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Database of Rice Transcription Factor (DRTF) is a collection of known and predicted transcription factors from <i>japonica</i> and <i>indica</i> rice genomes.

links directory index: 68
TitlePublication YearGoogle Scholar Citation Count
DRTF: a database of rice transcription factors200668

ePlantDatabase Content

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A suite of open-source world wide web-based tools for the visualization of large-scale data sets from the model organism Arabidopsis thaliana. It can be applied to any model organism. Currently has 3 modules: a sequence conservation explorer that includes homology relationships and single nucleotide polymorphism data, a protein structure model explorer, a molecular interaction network explorer, a gene product subcellular localization explorer, and a gene expression pattern explorer.

GABI-KatDatabase Content

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GABI-Kat: sequence-indexed collections of T-DNA insertion lines of Arabidopsis thaliana.

GeMprospectorTool Content

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GeMprospector is designed to find cross-species genetic marker candidates in legumes and grasses. GeMprospector automates PCR primer design based on multiple sequence alignments of submitted ESTs and their homologues in sequence databases from legumes or grasses.

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