Predicting Molecular Formulas of Fragment Ions with Isotope Patterns in Tandem Mass Spectra

2005 ◽  
Vol 2 (3) ◽  
pp. 217-230 ◽  
Author(s):  
Jingfen Zhang ◽  
Wen Gao ◽  
Jinjin Cai ◽  
Simin He ◽  
Rong Zeng ◽  
...  
Keyword(s):  
Mass Spectra ◽  
Tandem Mass ◽  
Tandem Mass Spectra ◽  
Fragment Ions

scholarly journals Features-Based Deisotoping Method for Tandem Mass Spectra

2011 ◽  
Vol 2011 ◽  
pp. 1-12 ◽  
Author(s):  
Zheng Yuan ◽  
Jinhong Shi ◽  
Wenjun Lin ◽  
Bolin Chen ◽  
Fang-Xiang Wu
Keyword(s):  
Mass Spectra ◽  
Protein Identification ◽  
Score Function ◽  
Tandem Mass ◽  
Isotopic Cluster ◽  
Tandem Mass Spectra ◽  
Fragment Ions ◽  
The Relationship ◽  
Cluster Graphs

For high-resolution tandem mass spectra, the determination of monoisotopic masses of fragment ions plays a key role in the subsequent peptide and protein identification. In this paper, we present a new algorithm for deisotoping the bottom-up spectra. Isotopic-cluster graphs are constructed to describe the relationship between all possible isotopic clusters. Based on the relationship in isotopic-cluster graphs, each possible isotopic cluster is assessed with a score function, which is built by combining nonintensity and intensity features of fragment ions. The non-intensity features are used to prevent fragment ions with low intensity from being removed. Dynamic programming is adopted to find the highest score path with the most reliable isotopic clusters. The experimental results have shown that the average Mascot scores and F-scores of identified peptides from spectra processed by our deisotoping method are greater than those by YADA and MS-Deconv software.

A Tandem Time-of-Flight Mass Spectrometer: Combination of a Multi-Turn Time-of-Flight and a Quadratic Field Mirror

2005 ◽  
Vol 11 (2) ◽  
pp. 181-187 ◽  
Author(s):  
Michisato Toyoda ◽  
Anastassios E. Giannakopulos ◽  
Alex W. Colburn ◽  
Peter J. Derrick
Keyword(s):  
High Resolution ◽  
Mass Spectrometer ◽  
Mass Spectra ◽  
Quadratic Field ◽  
Time Of Flight ◽  
Tandem Mass ◽  
Unique Combination ◽  
Tandem Mass Spectra ◽  
Fragment Ions ◽  
Temporal Focus

A tandem time-of-flight (ToF) mass spectrometer consisting of a multi-turn ToF and a quadratic-field ion mirror has been designed and constructed. The instrument combines the unique capabilities of both ToF instruments, namely high-resolution and monoisotopic precursor ion selection from the multi-turn ToF and temporal focus for fragment ions with different kinetic energies from the quadratic-field mirror. The first tandem mass spectra for this unique combination of ToF systems are presented.

scholarly journals Discrimination of Isomeric Fragment Ions Observed in Tandem Mass Spectra of Biantennary Oligosaccharides by Use of Selective Isotope Labeling

2004 ◽  
Vol 52 (5) ◽  
pp. 284-288 ◽  
Author(s):  
Koichi KATO ◽  
Yoshiki YAMAGUCHI ◽  
Noriko TAKAHASHI ◽  
Mamiko NISHIMURA ◽  
Shin-ichi IWAMOTO ◽  
...  
Keyword(s):  
Mass Spectra ◽  
Isotope Labeling ◽  
Tandem Mass ◽  
Tandem Mass Spectra ◽  
Fragment Ions ◽  
Selective Isotope Labeling

MS_Piano: A Software Tool for Annotating Peaks in CID Tandem Mass Spectra of Peptides and N-Glycopeptides

2021 ◽  
Author(s):  
Xiaoyu Yang ◽  
Pedatsur Neta ◽  
Yuri A. Mirokhin ◽  
Dmitrii V. Tchekhovskoi ◽  
Concepcion A. Remoroza ◽  
...  
Keyword(s):  
Mass Spectra ◽  
Software Tool ◽  
Tandem Mass ◽  
Tandem Mass Spectra

Combining low- and high-energy tandem mass spectra for optimized peptide quantification with isobaric tags

2010 ◽  
Vol 73 (4) ◽  
pp. 769-777 ◽  
Author(s):  
Loïc Dayon ◽  
Carla Pasquarello ◽  
Christine Hoogland ◽  
Jean-Charles Sanchez ◽  
Alexander Scherl
Keyword(s):  
Mass Spectra ◽  
High Energy ◽  
Tandem Mass ◽  
Peptide Quantification ◽  
Tandem Mass Spectra ◽  
Isobaric Tags

scholarly journals A Computational Framework for Heparan Sulfate Sequencing Using High-resolution Tandem Mass Spectra

2014 ◽  
Vol 13 (9) ◽  
pp. 2490-2502 ◽  
Author(s):  
Han Hu ◽  
Yu Huang ◽  
Yang Mao ◽  
Xiang Yu ◽  
Yongmei Xu ◽  
...  
Keyword(s):  
High Resolution ◽  
Heparan Sulfate ◽  
Mass Spectra ◽  
Tandem Mass ◽  
Computational Framework ◽  
Tandem Mass Spectra
Sign in / Sign up

Export Citation Format

Share Document