multi-Harmony: multi-group Sequence Harmony & multi-Relief

Please enable Javascript for maximal functionality of the multi-Harmony server.
Enable Java if you wish to view the results interactively with the Jalview and Jmol applets.

The multi-Harmony server provides simplified and powerful interactive access to improved Sequence Harmony (SH) and multi-Relief (mR) methods for detection of sub-family specific residues in alignments. You can input your query alignment and run SH and mR on your alignment. The output provides residues that are different among sub-families in your alignment. In addition, the annotated alignment can be viewed with Jalview, and the results are visualized on the 3D structure (if provided) with Jmol.

Requirements:
For optimal use, please enable Javascript and make sure you have a working version of Java. Chrome users, please make sure you have at least Java 6.10 installed. The Jalview applet can be tested here.

Documentation:

Introduction to the multi-Harmony web server.

Example output.

You can also rerun the example.

cog WSDL: SOAP interface available.

Please cite:
Brandt, B.W.^*, Feenstra, K.A^*. and Heringa, J. (2010) Multi-Harmony: detecting functional specificity from sequence alignment. Nucleic Acids Res. 38: W35-W40. * joint first authors

References:

Ye K., Feenstra K.A., Heringa J., IJzerman A.P. and Marchiori, E. (2008) Ranking specificity residues using a Machine Learning approach for feature weighting. Bioinformatics 24:18-25.

Feenstra K.A., Pirovano W.A., Krab K. and Heringa J. (2007) Sequence Harmony: Detecting Functional Specificity from Alignments. Nucleic Acids Research 35:W495-W498.

Pirovano W.A.^*, Feenstra K.A.^* and Heringa J. (2006) Sequence Comparison by Sequence Harmony Identifies Subtype Specific Functional Sites. Nucleic Acids Research 34:6540-654835. * joint first authors

Visualization:

The multi-Harmony web server was developed by Bernd Brandt.