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BMCBI
2007
166views more  BMCBI 2007»
13 years 7 months ago
Optimization of filtering criterion for SEQUEST database searching to improve proteome coverage in shotgun proteomics
Background: In proteomic analysis, MS/MS spectra acquired by mass spectrometer are assigned to peptides by database searching algorithms such as SEQUEST. The assignations of pepti...
Xinning Jiang, Xiaogang Jiang, Guanghui Han, Mingl...
BMCBI
2008
108views more  BMCBI 2008»
13 years 7 months ago
A nonparametric model for quality control of database search results in shotgun proteomics
Background: Analysis of complex samples with tandem mass spectrometry (MS/MS) has become routine in proteomic research. However, validation of database search results creates a bo...
Jiyang Zhang, Jianqi Li, Xin Liu, Hongwei Xie, Yun...
BMCBI
2006
112views more  BMCBI 2006»
13 years 7 months ago
MassSorter: a tool for administrating and analyzing data from mass spectrometry experiments on proteins with known amino acid se
Background: Proteomics is the study of the proteome, and is critical to the understanding of cellular processes. Two central and related tasks of proteomics are protein identifica...
Harald Barsnes, Svein-Ole Mikalsen, Ingvar Eidhamm...
BIRTHDAY
2010
Springer
14 years 17 days ago
Indexing and Searching a Mass Spectrometry Database
Abstract. Database preprocessing in order to create an index often permits considerable speedup in search compared to the iterated query of an unprocessed database. In this paper w...
Søren Besenbacher, Benno Schwikowski, Jens ...
VIS
2005
IEEE
204views Visualization» more  VIS 2005»
14 years 8 months ago
Differential Protein Expression Analysis via Liquid-Chromatography/Mass-Spectrometry Data Visualization
Differential protein expression analysis is one of the main challenges in proteomics. It denotes the search for proteins, whose encoding genes are differentially expressed under a...
Lars Linsen, Julia Löcherbach, Matthias Berth...