FATAL : Functional Analyses porTAL

List of Portals built using this web instance of FATAL

[ALOMY] Alopecurus myosuroides Alopecurus myosuroides transcriptome functional analyses [authentication required]

[Alomy20130204] Alopecurus myosuroides Alopecurus myosuroides transcriptome 20130204 functional analyses [authentication required]

[BRADI] Brachypodium distachyon Brachypodium distachyon functional analyses

[HELAN] Assembly of the XRQ transcriptome from different organs (2012) (eFP browser) Transcriptome based on 13 lanes of Illumina

[HP200907] Assembly of the combined transcriptomes of Helianthus annuus and Plasmopara halstedii (2009) H. annuus and P. halstedii transcriptome functional analyses [authentication required]

[Ha412T4l] Assembly of the HA412-HO transcriptome from different organs and stresses (2012) Helianthus annuus 412-HO transcriptome

[LOLSS] Lolium species Lolium species functional annotation portal [authentication required]

[PASSA] Pastinaca sativa Pastinaca sativa functional proteome analysis [authentication required]

[PRUAV] Prunus avium [authentication required]

[ROSCH] Rosa chinensis Rosa chinensis transcriptome resource

[cichorium] Cichorium sp. Cichorium sp. transcriptome functional analyses [authentication required]

[husep2007] Assembly of the transcriptome from 7 different Helianthus species 2007 (corresponds to the Affymetrix chip) [authentication required]

FATAL automates the deployment of web portals required for analyzing sequence functions. It focuses on the analysis of transcript sequences (typically EST Clusters) and their corresponding peptides but can be used to analyze any sequence dataset.
Principle : from a set of sequence data and a configuration file, FATAL builds a set of shell scripts in order to :

  1. compute analyses, store and index results
  2. generate a web portal with standard bioinformatics tools (browser, search engine, blast and patscan servers).

FATAL is written in PERL and uses scripts/libraries developped at LIPM (http://lipm-bioinfo.toulouse.inra.fr). Data are stored into Lucene indices and BerkeleyDB files : no need to install any RDBMS.

FATAL has been used for different public proteome analyses (http://iant.toulouse.inra.fr/L.japonicus , http://iant.toulouse.inra.fr/G.max ) and private several RNA-seq projects (http://www.heliagene.org/P.halstedii, http://www.heliagene.org/P.viticola ).

FATAL has been written in the frame of BIOS project (http://bios.toulouse.inra.fr).