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CRT home > RbDe Web Service Tutorial: Adding residue-based annotations

Clicking on the diagram attributes button of the menubar allows registered users to change certain attributes of created or saved diagrams.

To define color annotation, use the Define new color panel. Describe the color to be used for the painting by choosing a color from the predefined choices in the pull down menu or by entering the RBG components for the color of your choice. Remember to enter a name for the new color in the space indicated (this name should describe the property associated with a residue, so that it can later be used to build a legend for the diagram) and press Submit.

To color specific residues in the diagram click on the residue on the diagram (it becomes selected) and in the Set residue attributes panel enter the residue number of the first residue in the range of residues to be selected in Start, enter the residue number of the last residue to select in End. Alternatively, select the residue(s) to be colored and select the color to apply to the residue(s) via the Color pull down menu. The choices had been defined before. Press "Submit ..."

Also, documents already made available on the web can be linked to specific residues via a URL using the Set residue attributes panel. To do so, select the residue(s) which you want to document, enter the URL of the document the residue(s) should reference in the URL space provided and press "Submit ...". The residue becomes clickable in the Diagram Viewer but the URL is not shown when a residue is selected on the Residue and diagram attributes editor. URLs can be updated repeatedly using the Set residue attributes panel.
We hope to soon provide a way to submit HTML documents to the library for the purpose of residue annotation. Please check back for updates.

News

Jul, 2009; ChIPseeqer, a comprehensive framework for analysis of ChIP-seq data developed in the Elemento lab, is now available for download. [More]
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]

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Events

Dec 11th; 4:00pm-5:00pm: Institute for Computational Biomedicine Research in Progress Seminar Series - Fabien Campagne; ICB Conference Room - Y.1301
Jan 15th; 4:00pm-5:00pm: Institute for Computational Biomedicine Research in Progress Seminar Series - Lei Shi; ICB Conference Room - Y.1301
Feb 12th; 4:00pm-5:00pm: Institute for Computational Biomedicine Research in Progress Seminar Series - Christopher E. Mason; ICB Conference Room - Y.1301
Mar 12th; 4:00pm-5:00pm: Institute for Computational Biomedicine Research in Progress Seminar Series - Olivier Elemento; ICB Conference Room - Y.1301
Apr 9th; 4:00pm-5:00pm: Institute for Computational Biomedicine Research in Progress Seminar Series - Emre Aksay; ICB Conference Room - Y.1301
May 14th; 4:00pm-5:00pm: Institute for Computational Biomedicine Research in Progress Seminar Series - Jonathan D. Victor; ICB Conference Room - Y.1301
Jun 11th; 4:00pm-5:00pm: Institute for Computational Biomedicine Research in Progress Seminar Series - Harel Weinstein; ICB Conference Room - Y.1301
Jul 9th; 4:00pm-5:00pm: Institute for Computational Biomedicine Research in Progress Seminar Series - Duane Hassane; ICB Conference Room - Y.1301