Abstract:
:Transitivity Clustering is a method for the partitioning of biological data into groups of similar objects, such as genes, for instance. It provides integrated access to various functions addressing each step of a typical cluster analysis. To facilitate this, Transitivity Clustering is accessible online and offers three user-friendly interfaces: a powerful stand-alone version, a web interface, and a collection of Cytoscape plug-ins. In this paper, we describe three major workflows: (i) protein (super)family detection with Cytoscape, (ii) protein homology detection with incomplete gold standards and (iii) clustering of gene expression data. This protocol guides the user through the most important features of Transitivity Clustering and takes ∼1 h to complete.
journal_name
Nat Protocjournal_title
Nature protocolsauthors
Wittkop T,Emig D,Truss A,Albrecht M,Böcker S,Baumbach Jdoi
10.1038/nprot.2010.197subject
Has Abstractpub_date
2011-03-01 00:00:00pages
285-95issue
3eissn
1754-2189issn
1750-2799pii
nprot.2010.197journal_volume
6pub_type
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