Format

Send to:

Choose Destination
See comment in PubMed Commons below
Bioinformatics. 2011 Feb 1;27(3):405-7. doi: 10.1093/bioinformatics/btq680. Epub 2010 Dec 12.

When the Web meets the cell: using personalized PageRank for analyzing protein interaction networks.

Author information

  • 1Protein Information Technology Group, Eötvös University, Pázmány Péter sétány 1/C and Uratim Ltd., InfoPark D, H-1117 Budapest, Hungary.

Abstract

MOTIVATION:

Enormous and constantly increasing quantity of biological information is represented in metabolic and in protein interaction network databases. Most of these data are freely accessible through large public depositories. The robust analysis of these resources needs novel technologies, being developed today.

RESULTS:

Here we demonstrate a technique, originating from the PageRank computation for the World Wide Web, for analyzing large interaction networks. The method is fast, scalable and robust, and its capabilities are demonstrated on metabolic network data of the tuberculosis bacterium and the proteomics analysis of the blood of melanoma patients.

AVAILABILITY:

The Perl script for computing the personalized PageRank in protein networks is available for non-profit research applications (together with sample input files) at the address: http://uratim.com/pp.zip.

PMID:
21149343
[PubMed - indexed for MEDLINE]
Free full text
PubMed Commons home

PubMed Commons

0 comments
How to join PubMed Commons

    Supplemental Content

    Full text links

    Icon for HighWire
    Loading ...
    Write to the Help Desk