Genostar

Genostar
Company type	Privately held company
Industry	Bioinformatics
Founded	2004; 20 years ago
Headquarters	Grenoble, France
Products	Software and Database
Website	www.genostar.com

Genostar is a bioinformatics provider based in Grenoble, France. The company was founded in 2004 following the "Genostar consortium"^[1] that was created in 1999 as a public-private consortium by Genome Express, Hybrigenics, INRIA (Institut National de Recherche en Informatique et Automatique / French National Institute for Research in Computer Science and Control)^[2] and The Pasteur Institute.

Software

Metabolic Pathway Builder is a bioinformatics environment dedicated to microbial research. This covers sequence assembly, mapping, annotation transfer and identification of protein domains, comparative genomics, structural searches, metabolic pathway analysis, modeling and simulation of biological networks. Genostar's software is platform independent and can thus be used for both Mac OS X, Windows, and Linux.

Sequence assembly

Mapping an ensemble of sequences on a reference sequence
between a reference sequence and contigs, between two sequences or between two sets of sequences
finding of exact matches with minimum length using MUMmer
detection of specific regions and SNPs
creation of an assembled sequence relative to reference sequences

Genomic annotation

Gene prediction: ab-initio gene prediction using a Hidden Markov model based method
BlastX
Automatic annotation transfer using BlastP

Proteic annotation

Metabolic Pathway Builder integrates several methods dedicated to proteic annotation:

Pfam domain prediction using HMMER
Several EMBOSS methods (antigenic, 2D structure prediction)

Expression Data Solution (EDS)

Genostar's Expression Data Solution (EDS) connects microarray data to genes, gene products and biochemical reactions, based on keywords and annotations. This software allows to:

Assign expression values to the gene names and IDs
Identify co-expressed genes and visually analyze the reactions and metabolic pathways in which they are involved
Identify and perform analysis on co-regulated genes in terms of genomic localization, functional annotation and metabolism
Colorize CDSs of interest in genomic maps according to their expression values and highlight the corresponding reactions in interactive metabolic KEGG maps
Analyze the significance of functional data of a collection or sub-collection of CDSs (GO, KEGG and more): Fisher test
Collect and visualize all functional data in exportable tables and maps

Database

Genostar's MicroB database consists of genomic, proteic, biochemical and metabolic data from approximately 1100 bacterial and archaeal organis.

Partners

INRIA (Institut National de Recherche en Informatique et Automatique / French National Institute for Research in Computer Science and Control)
Swiss Institute of Bioinformatics
ChemAxon^[3]

Notes and references

^ "GenoStar: A Bioinformatics Platform for Exploratory Genomics". www.ercim.eu. Retrieved 2024-07-23.
^ "INRIA - Sociétés de technologie issues de l'INRIA". Archived from the original on 2010-02-13. Retrieved 2010-05-13.
^ "Integrators « ChemAxon - toolkits and desktop applications for cheminformatics". Archived from the original on 2010-05-11. Retrieved 2010-05-16.

External links

[1] "GenoStar: A Bioinformatics Platform for Exploratory Genomics". www.ercim.eu. Retrieved 2024-07-23.

[2] "INRIA - Sociétés de technologie issues de l'INRIA". Archived from the original on 2010-02-13. Retrieved 2010-05-13.

[3] "Integrators « ChemAxon - toolkits and desktop applications for cheminformatics". Archived from the original on 2010-05-11. Retrieved 2010-05-16.

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