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Downloads

Browse the PANTHER ftp site: ftp://ftp.pantherdb.org

  • PANTHER HMM library Version 6.1
    • Contains the PANTHER HMMs for 5547 protein family HMMs, divided into 24,582 functionally distinct protein subfamily HMMs. The PANTHER HMMs are in the HMMER format. There is also a version of the library available that can be used for the Coding SNP Analysis tool. release date January 6, 2009

  • PANTHER HMM Scoring tool  
    • Download the PANTHER scoring tool, to score protein sequences against the entire PANTHER HMM library and analyze your sequences. release date Aug. 24, 2007

  • PANTHER Coding SNP Analysis tool  
    • Download the PANTHER Coding SNP Analysis tool to estimate the likelihood that a particular nonsynonymous (amino-acid changing) coding SNP will cause a functional impact to the protein. release date Aug. 24, 2007

  • TIPS (Tree Inferred from Profile Scores)  
    • TIPS is an algorithm to build a protein family tree. This tree-building algorithm is based on agglomerative clustering with a similarity measure derived from profile scoring. TIPS is being used to generate the trees in the PANTHER protein Classification System. release date May 29, 2007

  • PANTHER Pathway 2.5
    • Contains 165 regulatory and metabolic pathways, each with subfamilies and protein sequences mapped to individual pathway components. All pathway diagrams are in SBML format. Both SBML files and Protein Sequence Association data are available for download.

  • PANTHER - InterPro mapping file
    • Contains the mapping of PANTHER families and subfamilies to InterPro records as of December 8, 2006. PANTHER is being integrated into the InterPro suite of databases incrementally.

  • Applied Biosystems Expression Array System files
    • A tab-delimited annotation file for use with Spotfire® and other microarray analysis packages, a zipped genome for use with GeneSpring® and the mismatch file for the Human, Mouse and Rat Genome survey microarrays are available for download. Simply select the species of interest from the pull down menu. release date June 30, 2006
    Available to logged-in users who have accepted the database access agreement

  • PANTHER sequence classification files
    • Contains the PANTHER family, subfamily, molecular function, biological process, and pathway classifications for the the complete proteomes derived from the human, mouse, rat and Drosophila melanogaster genomes, as well as the classifications of all proteins in the UniProt dataset.

  • PANTHER HMM Classification file
    • Contains the PANTHER family/subfamily name, and the molecular function, biological process, and pathway classifications for every PANTHER protein family and subfamily in PANTHER HMM library Version 6.1.

  • CellDesigner™
    • CellDesigner™ is a software program for drawing pathway networks and capture molecular events using controlled graphic notations. The diagrams generated by Cell Designer are stored in SBML (Systems Biology Markup Language) format, and can be shared by other software that supports the same standard.
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