Skip Navigation



Bioinformatics Advance Access published online on April 27, 2006
Bioinformatics, doi:10.1093/bioinformatics/btl159
This Article
Right arrow Advance Access manuscript (PDF) Freely available
Right arrow All Versions of this Article:
22/13/1668    most recent
btl159v1
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrowRequest Permissions
Google Scholar
Right arrow Articles by Yuan, X.
Right arrow Articles by Wu, C. H.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Yuan, X.
Right arrow Articles by Wu, C. H.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

© The Author (2006). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org
Received February 3, 2006
Revised March 21, 2006
Accepted April 21, 2006

Applications note

An online literature mining tool for protein phosphorylation

X. Yuan 1 *, Z. Z. Hu 1 * *, H. T. Wu 1, M. Torii 2, M. Narayanaswamy 3, K. E. Ravikumar 3, K. Vijay-Shanker 2, and C. H. Wu 1

1 Protein Information Resource, Department of Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, Washington, DC 20007, USA
2 Department of Computer and Information Sciences, University of Delaware, Newark, DE 19716, USA
3 AU-KBC Research Centre, Anna University, Chennai, India

* To whom correspondence should be addressed.
Z. Z. Hu, E-mail: zh9{at}georgetown.edu


  Abstract

A web-based version of the RLIMS-P literature mining system was developed for online mining of protein phosphorylation information from MEDLINE abstracts. The online tool presents extracted phosphorylation objects (phosphorylated proteins, phosphorylation sites, and protein kinases) in summary tables and full reports with evidence-tagged abstracts. The tool further allows mapping of phosphorylated proteins to protein entries in the UniProt Knowledgebase based on PubMed ID and/or protein name. The literature mining, coupled with database association, allows retrieval of rich biological information for the phosphorylated proteins and facilitates database annotation of phosphorylation features.

Availability: The online RLIMS-P is freely accessible at http://pir.georgetown.edu/iprolink/rlimsp.

Supplementary Data: http://pir.georgetown.edu/iprolink/rlimsp/supplement/.

Associate Editor: Thomas Lengauer

*The authors wish it to be known that, in their opinion, the first two authors should be regarded as joint First Authors


Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?


This article has been cited by other articles:


Home page
 BioinformaticsHome page
C.-Y. Yang, C.-H. Chang, Y.-L. Yu, T.-C. E. Lin, S.-A. Lee, C.-C. Yen, J.-M. Yang, J.-M. Lai, Y.-R. Hong, T.-L. Tseng, et al.
PhosphoPOINT: a comprehensive human kinase interactome and phospho-protein database
Bioinformatics, August 15, 2008; 24(16): i14 - i20.
[Abstract] [Full Text] [PDF]


Disclaimer:
Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.