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Bioinformatics Advance Access originally published online on June 27, 2009
Bioinformatics 2009 25(18):2447-2449; doi:10.1093/bioinformatics/btp398
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© 2009 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

ITM Probe: analyzing information flow in protein networks

Aleksandar Stojmirovic and Yi-Kuo Yu *

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA

*To whom correspondence should be addressed.


  Abstract

Summary: Founded upon diffusion with damping, ITM Probe is an application for modeling information flow in protein interaction networks without prior restriction to the sub-network of interest. Given a context consisting of desired origins and destinations of information, ITM Probe returns the set of most relevant proteins with weights and a graphical representation of the corresponding sub-network. With a click, the user may send the resulting protein list for enrichment analysis to facilitate hypothesis formation or confirmation.

Availability: ITM Probe web service and documentation can be found at www.ncbi.nlm.nih.gov/CBBresearch/qmbp/mn/itm_probe

Contact: yyu{at}ncbi.nlm.nih.gov

Associate Editor: Burkhard Rost

Received on April 21, 2009; revised on June 10, 2009; accepted on June 23, 2009

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