HOODS: finding context-specific neighborhoods of proteins, chemicals and diseases

Research output: Contribution to journalJournal articleResearchpeer-review

Clustering algorithms are often used to find groups relevant in a specific context; however, they are not informed about this context. We present a simple algorithm, HOODS, which identifies context-specific neighborhoods of entities from a similarity matrix and a list of entities specifying the context. We illustrate its applicability by finding disease-specific neighborhoods of functionally associated proteins, kinase-specific neighborhoods of structurally similar inhibitors, and physiological-system-specific neighborhoods of interconnected diseases. HOODS can be used via a simple interface at http://hoods.jensenlab.org, from where the source code can also be downloaded.

Original languageEnglish
Article numbere1057
Pages (from-to)1-10
Number of pages10
Publication statusPublished - 2015

ID: 150709290