Phylogenetic Analysis Programs
v3.1
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Site History

  • the 27th June 2014

    New Ensembl release 75.
    With several updatings.A complete list of the changes in release 75 can be found at:
    news from Ensembl


  • the 22th January 2013

    Bug correction
    A bug prevented to find orthologous genes of Gorilla (Gorilla gorilla gorilla) and orthologous genes of
    Lamprey (Petromyzon marinus), the problems are solved.


    New Ensembl release 70.
    With several updatings.A complete list of the changes in release 70 can be found at:
    news from Ensembl


  • the 15th January 2013

    Bug correction
    A bug prevented to find orthologous genes of dog (Canis lupus familiaris), the problem is solved.


  • the 28th November 2012

    New version 2.7 :

    New Ensembl release 69.
    With new species : Ferret (Mustela putorius furo) and Platyfish (Xiphophorus maculatus)
    news from Ensembl

    Genomicus links are updated.

    Other species were added:
    Tilapia (Oreochromis niloticus), Lamprey (Petromyzon marinus), Cod (Gadus morhua), Chinese softshell turtle (Pelodiscus sinensis) and Coelacanth (Latimeria chalumnae).

  • the 15th November 2012

    PhyleasProg was used to describe the evolution of immune genes pig.
    PhyleasProg cited in this article.
    Analyses of pig genomes provide insight into porcine demography and evolution
    Nature. 2012 Nov 15;491(7424):393-8.


  • the 6th Septembre 2012

    They talk about us!
    PhyleasProg cited in a research article.
    Evolution of Genes Involved in Gamete Interaction: Evidence for Positive Selection, Duplications and Losses in Vertebrates
    PLoS ONE 7(9): e44548


  • the 27th August 2012

    They talk about us!
    PhyleasProg is highlight by INRA.
    In its activity report The french National Institute for Agricultural Research chose to highlight a number of research projects, including the web server PhyleasProg.

  • the 19th June 2012

    Job Name.
    Now, it is possible to associate a job name to analyses.
    It is displayed inside the job summary page and sent by the mail including the URL address of job summary page.

    Options are displayed.
    Now, the level of computation (fast or fine) and the type of results "orthologs only" or "orthologs and paralogs"
    are displayed inside the job summary page and are sent by the mail including the URL address of job summary page.

    New flat files.
    In Menu page at Flat Files menu, alignments generated by PRANK were added (with Fine option).
    The tree in NHX format is now downloadable from FlatFiles.

    Methods page updated.
    Via the "Methods" link in the upper left menu, page was updated for the new version 2.6.

    User Guide page updated.
    Via the "User Guide" link in the upper left menu, page was updated for the new version 2.6.

    Embedded Tools page updated.
    Prank refences were added in the "Embedded Tools" page accessible via the upper left menu.

  • the 15th June 2012

    New version 2.6 :

    New Ensembl release 67.
    With the new assembly of the pig genome, Sscrofa10.2, from the Swine Genome Sequencing Consortium,
    the new squirrel assembly (Squirrel) and more ... news from Ensembl
    Genomicus links are updated.


    Prank is now an embedded tool in PhyleasProg!
    Thanks to an option menu on the home page, PRANK, via "Fine computation" option, is used for the multiple sequence alignments.
    MUSCLE is used for the multiple sequence alignments via the "Fast computation" option.

    Options "orthologs and paralogs" or "orthologs only".
    Thanks to an option choice on the home page, computation can be launched only on orthologs.

    Colors of pressure selection results legend are modified.
    the yellow-green gradient was substituted by a green gradient for purifing selection.

    Modification of size of job status legend.
    job status legend are smaller to avoid confusing.

    New examples pre-computed.
    via "Browse some protein examples" link on home page, you can see data computed with PhyleasProg with "Fine option".

    A site history page.
    To inform of new releases, bug corrections and all other news about PhyleasProg, a site history has been created.