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Arabidopsis Information

Arabidopsis Information Portal (AIP)

The Arabidopsis Information Portal is an open-access online community resource for Arabidopsis research. AIP enables biologists to navigate from the Arabidopsis thaliana Col-0 reference genome sequence to its associated annotation including gene structure, gene expression, protein function, and interaction networks. AIP was funded in 2013 and came on line in 2014. AIP already offers a single interface through which to access a wide range of Arabidopsis information. AIP will grow through contributions of other labs in the form of modules: data, computation, and visualization tools.

Genome Resources

TAIR

The Arabidopsis Information Resource (TAIR) provides a comprehensive resource for the scientific community working with Arabidopsis thaliana, a widely used model plant

TIGR

TIGR's Genome Projects are a collection of curated databases containing DNA and protein sequence, gene expression, cellular role, protein family, and taxonomic data for microbes, plants and humans

NCBI

NCBI creates public databases, conducts research in computational biology, develops software tools for analyzing genome data, and disseminates biomedical information - all for the better understanding of molecular processes affecting human health and disease

Prediction Resources

iTAK

iTAK is a program to identify plant transcription factors (TFs), transcriptional regulators (TRs) and protein kinases (PKs) from protein or nucleotide sequences and then classify individual TFs, TRs and PKs into different gene families.

Gene Expression Resources

MPSS

MPSS produces short sequence signatures produced from a defined position within an mRNA, and the relative abundance of these signatures in a given library represents a quantitative estimate of expression of that gene. The MPSS signatures are 17 bp in length, and can uniquely identify >95% of all genes in Arabidopsis.

Seed Resources

NASC

The Nottingham Arabidopsis Stock Centre (NASC) provides seed and information resources to the International Arabidopsis Genome Programme and the wider research community

ABRC

The mission of the ABRC is to acquire, preserve and distribute seed and DNA resources that are useful to the Arabidopsis research community.

GARNet

GARNet is intended to function as a platform for international Arabidopsis research and for research on other plant species.

Cis Elements & Transcription Regulation Resources

PlantCare

A referential database with: 435 different names of plant transcription sites 149 from monocots 281 from dicots 5 from other plants describing more than 159 plant promoters

PLACE

A Database of Plant Cis-acting Regulatory DNA Elements

ATTED-II

ATTED-II provides co-regulated gene relationships in Arabidopsis thaliana to estimate gene functions

Comparative Genomic Resources

GRASSIUS

GRASSIUS provides a collection of databases for transcription factors (GRASSTFDB), promoters and cis-regulatory elements (GRASSPROMDB) across the grasses, including maize, sugarcane, sorghum and rice.

Microarray Resources

Genevestigator

Visualize gene expression profiles in different tissues, development stages, phenotypes, and treatments. Find gene correlations and co-expression of gene families.

MIAME

Minimum Information About a Microarray Experiment that is needed for unambiguous interpretation and reproducibility.



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