Skip Navigation


Bioinformatics Advance Access originally published online on April 7, 2005
Bioinformatics 2005 21(13):3049-3050; doi:10.1093/bioinformatics/bti439
This Article
Right arrow Full Text Freely available
Right arrow FREE Full Text (Print PDF) Freely available
Right arrow All Versions of this Article:
21/13/3049    most recent
bti439v1
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 ISI Web of Science
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 arrow Search for citing articles in:
ISI Web of Science (6)
Right arrowRequest Permissions
Google Scholar
Right arrow Articles by Li, D.
Right arrow Articles by Gao, W.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Li, D.
Right arrow Articles by Gao, W.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

© The Author 2005. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions{at}oupjournals.org

pFind: a novel database-searching software system for automated peptide and protein identification via tandem mass spectrometry

Dequan Li 1,2,*, Yan Fu 1,2, Ruixiang Sun 1, Charles X. Ling 3, Yonggang Wei 1, Hu Zhou 4, Rong Zeng 4, Qiang Yang 5, Simin He 1 and Wen Gao 1,2

1Institute of Computing Technology, Chinese Academy of Sciences Beijing 100080, China
2Graduate School of Chinese Academy of Sciences Beijing 100039, China
3Department of Computer Science, The University of Western Ontario Canada
4Institute of Biochemistry and Cell Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences Shanghai 200031, China
5Department of Computer Science, Hong Kong University of Science and Technology Hong Kong, China

*To whom correspondence should be addressed.

Summary: Research in proteomics requires powerful database-searching software to automatically identify protein sequences in a complex protein mixture via tandem mass spectrometry. In this paper, we describe a novel database-searching software system called pFind (peptide/protein Finder), which employs an effective peptide-scoring algorithm that we reported earlier. The pFind server is implemented with the C++ STL, .Net and XML technologies. As a result, high speed and good usability of the software are achieved.

Availability: The pFind web server can be freely accessed through the website http://pfind.jdl.ac.cn. In this website, the compiled binary of the local version is also available.

Contact: dqli{at}jdl.ac.cn


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
 Brief BioinformHome page
B.-J. M. Webb-Robertson and W. R. Cannon
Current trends in computational inference from mass spectrometry-based proteomics
Brief Bioinform, September 1, 2007; 8(5): 304 - 317.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
D. Li, W. Gao, C. X. Ling, X. Wang, R. Sun, and S. He
IndexToolkit: an open source toolbox to index protein databases for high-throughput proteomics
Bioinformatics, October 15, 2006; 22(20): 2572 - 2573.
[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.