institute for computational biomedicine: RbDe Web Service

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[ description ]

RbDe is a web application to create and edit residue-based diagrams of (mostly transmembrane) proteins.

There is now an extended version available where users can import custom diagram layouts and use them to render members of any protein family.

[ about the method ]

F. Campagne and H. Weinstein. Schematic representation of residue-based protein-context dependent data: an application to transmembrane proteins. 1999. J. of Molecular Graphics and Modeling, 17(3-4):207-13 [Pubmed]

Konvicka K., Campagne F. and Weinstein H. Interactive construction of residue-based diagrams of proteins: the RbDe web service. 2000. Protein Engineering. 13(6):395-6. [Pubmed]

Skranbanek L., Campagne F. and Weinstein H. Building protein diagrams on the web with the residue-based diagram editor RbDe 2003. Nucleic Acids Research. 31(13):3856-3858. [NAR online]

[ documentation ]

Visit the following tutorial to learn how to use the RbDe web service:

Registering and logging into RbDe

Importing a sequence into RbDe

Visualizing a sequence in RbDe

Layouts for RbDe diagrams

Modifying and customizing the protein diagram in RbDe

Adding residue-based annotations to RbDe diagrams

Navigating through RbDe with the menu bar

[ availability ]

RbDe Web Serviceis available at: [ access RbDe Web Service]

News

Apr, 2009; The BDVal program developed by the Campagne laboratory for MAQC-II is now available from http://bdval.org. The software supports the development and evaluation of predictive biomarker models from high-throughput data. The web site offers binary and source distributions. [More]
Jan, 2009; Twease now supports searching MEDLINE articles by Author, Journal, and Publication Year. Examples for performing these searches can be found in the updated Twease tutorial. [More]
Jan, 2009; The free bioinformatics walk-in clinics are back and will be available every Monday, 2-4pm at the Weill Cornell Medical Library, in the Computer Room on the lower level. [More]

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