Skip Navigation



Bioinformatics Advance Access published online on February 26, 2008
Bioinformatics, doi:10.1093/bioinformatics/btn063
This Article
Right arrow Advance Access manuscript (PDF) Freely available
Right arrow All Versions of this Article:
24/7/1021    most recent
btn063v1
Right arrow Comments: Submit a response
Right arrow Alert me when this article is cited
Right arrow Alert me when Comments are posted
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 Mayampurath, A. M.
Right arrow Articles by Smith, R. D.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Mayampurath, A. M.
Right arrow Articles by Smith, R. D.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

© The Author (2008). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

DeconMSn: A software tool for accurate parent ion monoisotopic mass determination for tandem mass spectra

Anoop M. Mayampurath 1, Navdeep Jaitly 1, Samuel O. Purvine 1, Matthew E. Monroe 1, Kenneth J. Auberry 1, Joshua N. Adkins 1 and Richard D. Smith *,1

1Pacific Northwest National Laboratory, Richland, WA 99354 USA.

*To whom correspondence should be addressed. Dr. Richard D. Smith, E-mail: rds{at}pnl.gov


  Abstract

Summary: DeconMSn accurately determines the monoisotopic mass and charge state of parent ions from high resolution tandem mass spectrometry data, offering significant improvement for LTQ_FT and LTQ_Orbitrap instruments over the commercially delivered Thermo Fisher Scientific's extract_msn tool. Optimal parent ion mass tolerance values can be determined using accurate mass information, thus improving peptide identifications for high mass measurement accuracy experiments. For low-resolution data from LCQ and LTQ instruments, DeconMSn incorporates a support-vector-machine-based charge detection algorithm that identifies the most likely charge of a parent species through peak characteristics of its fragmentation pattern.

Availability: http://ncrr.pnl.gov/software/ or http://www.proteomicsresource.org/

Contact: rds{at}pnl.gov

Supplementary Information: PowerPoint presentation/ Poster on http:/ncrr.pnl.gov/software/.

Associate Editor: Prof. Alfonso Valencia

Received on September 30, 2007; revised on February 8, 2008; accepted on February 16, 2008

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
P. C. Carvalho, T. Xu, X. Han, D. Cociorva, V. C. Barbosa, and J. R. Yates III
YADA: a tool for taking the most out of high-resolution spectra
Bioinformatics, October 15, 2009; 25(20): 2734 - 2736.
[Abstract] [Full Text] [PDF]

Home page
 Mol. Cell. ProteomicsHome page
A. Umar, H. Kang, A. M. Timmermans, M. P. Look, M. E. Meijer-van Gelder, M. A. den Bakker, N. Jaitly, J. W. M. Martens, T. M. Luider, J. A. Foekens, et al.
Identification of a Putative Protein Profile Associated with Tamoxifen Therapy Resistance in Breast Cancer
Mol. Cell. Proteomics, June 1, 2009; 8(6): 1278 - 1294.
[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.