Tag: Pairwise Similarity

PPI-PS – Protein-protein Interaction based on Pairwise Similarity

PPI-PS

:: DESCRIPTION

The PPI-PS method consists of a representation of each protein sequence by a vector of pairwise similarities against large subsequences of amino acids created by a shifting window which passes over concatenated protein training sequences.

::DEVELOPER

Nazar Zaki , Bioinformatics Laboratory, UAE University.

:: SCREENSHOTS

N/A

::REQUIREMENTS

:: DOWNLOAD

 PPI-PS

:: MORE INFORMATION

Citation

BMC Bioinformatics. 2009 May 17;10:150. doi: 10.1186/1471-2105-10-150.
Protein-protein interaction based on pairwise similarity.
Zaki N, Lazarova-Molnar S, El-Hajj W, Campbell P.

CLANS 20101007 – Visualize Protein Families based on Pairwise Similarity

CLANS 20101007

:: DESCRIPTION

CLANS (CLuster ANalysis of Sequences) is a software for visualizing protein families based on pairwise similarity. A clustering is performed based on all against all BLAST similarities and the detected groups are returned. Only BLAST similarities better than a specified cutoff are used to perform the cluster analysis.

::DEVELOPER

CLANS team

:: SCREENSHOTS

:: REQUIREMENTS

:: DOWNLOAD

 CLANS

:: MORE INFORMATION

Citation:

Frickey, T. and Lupas A. N. (2004)
CLANS: a Java application for visualizing protein families based on pairwise similarity.
Bioinformatics, 20(18), 3702-3704.