Learn to use TAIR, the primary resource for molecular and genetic information on the higher seed plant and model organism Arabidopsis thaliana. The comprehensive data set that TAIR encompasses focuses on genomic and genetic data but also contains information on publications, protocols and the Arabidopsis research community. To aid in the navigation of this vast wealth of data, TAIR provides numerous searches, sequence data, and gene information tools which allow useful information to be retrieved quickly and efficiently.

You will learn:

  • to perform basic searches and navigate several useful browsers
  • to browse genetic features within the context of the entire chromosome
  • to search detailed metabolic pathways
  • to perform nucleotide or amino acid sequence homology searches
TUTORIAL RELATED CONTENT

TUTORIALS

This tutorial is a part of the tutorial group Model organisms. You might find the other tutorials in the group interesting:

Saccharomyces Genome Database (SGD): Saccharomyces Genome Database

WormBase: molecular and genetic information on Caenorhabditis elegans and related species

PhenomicDB: Phenotypes database

FlyBase: A resource for the genes, genome and molecular biology of Drosophila melanogaster and related species.

Mouse Genome Informatics (MGI): The Mouse Genome Informatics resource provides data, tools, and analyses for the mouse model organism.

Rat Genome Database (RGD): Rat Genome Database

ZFIN: The Zebrafish Information Network

Gramene: A resource on rice and other grass genomes


This tutorial is a part of the tutorial group Plant resources. You might find the other tutorials in the group interesting:

Ensembl: Ensembl Genome Browser

PlantGDB: Plant Genome Database

GBrowse: GBrowse User Introductory Tutorial

Ensembl Legacy: Older version of Ensembl Genome Browser

World Tour of Genomics Resources: A World Tour of Genome Resources for finding and learning the right resource for your needs.

Gramene: A resource on rice and other grass genomes

CATEGORIES

Genome Databases (euk) : Genomic databases or repositories primarily aimed at eukaryotic organisms. Some may contain prokaryotic data as well.

BLOG POSTS

(re)Funding Databases II: So, I wrote about defunding resources and briefly mentioned a paper in Database about funding (or 're'funding) databases and resources. I'd like to discuss this a bit further. The paper, by Chandras et...

(de)Funding Databases: From Deepak Singh: Scientists spend years collecting and generating increasing amounts data. The data ranges from raw instrument data, “finished” data (e.g. a genome sequence which is constructed aft...

An interesting experiment I heard about at the Biocuration Conference: A few more bits of info from the recent 3rd International Biocuration Conference: several of the speakers described the amounts of biological data coming, and soon to be coming, as beyond a tsunami - m...

Tip of the Week: Genomic Data Resources: Today's tip isn't on just one resource or a part of one, it's a whirlwind tour of many! In fact, in less than 5 minutes I'll put you through ALL of the resources online on genomics. Ok, well, not all. ...

How to pick a genome database platform: I was reading a newsletter I get from Biotechniques, and their WebWatch often has some fun items. (You may need to get a free login to see the WebWatch.) This week they referred to the MaizeGDB databas...

BIOMED CENTRAL

Recent BioMed Central research articles citing this resource

Qiao Xin et al., Genome-wide identification and comparative analysis of the heat shock transcription factor family in Chinese white pear ( Pyrus bretschneideri ) and five other Rosaceae species. BMC Plant Biology (2015) doi:10.1186/s12870-014-0401-5

Kamenetsky Rina et al., Integrated transcriptome catalogue and organ-specific profiling of gene expression in fertile garlic ( Allium sativum L.). BMC Genomics (2015) doi:10.1186/s12864-015-1212-2

Ke Tao et al., ocsESTdb: a database of oil crop seed EST sequences for comparative analysis and investigation of a global metabolic network and oil accumulation metabolism. BMC Plant Biology (2015) doi:10.1186/s12870-014-0399-8

Bai Yang et al., IRcall and IRclassifier: two methods for flexible detection of intron retention events from RNA-Seq data Selected articles from the Thirteenth Asia Pacific Bioinformatics Conference (APBC 2015): Genomics The Thirteenth Asia Pacific Bioinformatics Conference (APBC 2015). BMC Genomics (2015) doi:10.1186/1471-2164-16-S2-S9

Chien Chia-Hung et al., EXPath: a database of comparative expression analysis inferring metabolic pathways for plants Selected articles from the Thirteenth Asia Pacific Bioinformatics Conference (APBC 2015): Genomics The Thirteenth Asia Pacific Bioinformatics Conference (APBC 2015). BMC Genomics (2015) doi:10.1186/1471-2164-16-S2-S6