Popgenie

The Populus Genome Integrative Explorer (PopGenIE)

Content
Description	A community resource for the Populus genome.
Organisms	Populus
Contact
Research center	Umeå Plant Science Centre
Primary citation	Sjödin & al. (2009)
Release date	2008
Access
Website	http://popgenie.org
Download URL	ftp://popgenie.org/popgenie/
Web service URL	http://api.popgenie.org
Tools
Web	GBrowse, JBrowse, DigitalNorthern, efp, ePlant, BLAST, BLAT, Insilico PCR, ExPlot, GOgraph
Miscellaneous
License	MIT Licence
Versioning	Populus trichocarpa v1.0/v2.0/v3.0
Version	Populus trichocarpa v3.0

PopGenIE (Populus Genome Integrative Explorer) is an integrated set of tools for exploring the genome and transcriptome of the model plant system Populus.

PopGenie is a model organism database (MOD) which brings together the increasingly extensive collection of genetics and genomics data created by the scientific community in a central resource. Such MODs offer a single entry point to the collection of resources available within a model system, typically including tools for exploring and querying those resources. PopGenIE contains an integrated set of tools including genome, synteny and quantitative trait locus (QTL) browsers for exploring genetic data. Expression tools include an electronic fluorescent pictograph (eFP) browser, expression profile plots, co-regulation within collated transcriptomics data sets, and identification of over-represented functional categories and genomic hotspot locations. A number of collated transcriptomics data sets are available in the eFP browser to facilitate functional exploration of gene function. Additional homology and data extraction tools are provided. PopGenIE significantly increases accessibility to Populus genomics resources and allows exploration of transcriptomics data without the need to learn or understand complex statistical analysis methods.

There are various tools(ePlant.eXplot,PopNet...) available in PopGenIE to analyse biological data. PopGenIE also archived their old versions. All tools are under MIT Licence.