Systematic Evaluation of Protein Sequence Filtering Algorithms for Proteoform Identification Using Top-Down Mass Spectrometry

Qiang Kou; Si Wu; Xiaowen Liu

doi:10.1002/pmic.201700306

Systematic Evaluation of Protein Sequence Filtering Algorithms for Proteoform Identification Using Top-Down Mass Spectrometry

PROTEOMICS ◽

10.1002/pmic.201700306 ◽

2018 ◽

Vol 18 (3-4) ◽

pp. 1700306 ◽

Cited By ~ 8

Author(s):

Qiang Kou ◽

Si Wu ◽

Xiaowen Liu

Keyword(s):

Mass Spectrometry ◽

Protein Sequence ◽

Systematic Evaluation ◽

Top Down ◽

Filtering Algorithms ◽

Top Down Mass Spectrometry

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A spectrum graph-based protein sequence filtering algorithm for proteoform identification by top-down mass spectrometry

2017 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) ◽

10.1109/bibm.2017.8217653 ◽

2017 ◽

Author(s):

Runmin Yang ◽

Daming Zhu ◽

Qiang Kou ◽

Poornima Bhat-Nakshatri ◽

Harikrishna Nakshatri ◽

...

Keyword(s):

Mass Spectrometry ◽

Protein Sequence ◽

Top Down ◽

Filtering Algorithm ◽

Spectrum Graph ◽

Top Down Mass Spectrometry

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Internal Fragments Generated from Different Top-Down Mass Spectrometry Fragmentation Methods Extend Protein Sequence Coverage

Journal of the American Society for Mass Spectrometry ◽

10.1021/jasms.1c00113 ◽

2021 ◽

Author(s):

Muhammad A. Zenaidee ◽

Benqian Wei ◽

Carter Lantz ◽

Hoi Ting Wu ◽

Tyler R. Lambeth ◽

...

Keyword(s):

Mass Spectrometry ◽

Protein Sequence ◽

Sequence Coverage ◽

Top Down ◽

Protein Sequence Coverage ◽

Mass Spectrometry Fragmentation ◽

Top Down Mass Spectrometry

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An Improved Top-Down Mass Spectrometry Characterization of Chlamydomonas reinhardtii Histones and Their Post-translational Modifications

Journal of the American Society for Mass Spectrometry ◽

10.1021/jasms.1c00029 ◽

2021 ◽

Author(s):

Sarah R. Rommelfanger ◽

Mowei Zhou ◽

Henna Shaghasi ◽

Shin-Cheng Tzeng ◽

Bradley S. Evans ◽

...

Keyword(s):

Mass Spectrometry ◽

Chlamydomonas Reinhardtii ◽

Top Down ◽

Post Translational Modifications ◽

Top Down Mass Spectrometry

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Structural O-Glycoform Heterogeneity of the SARS-CoV-2 Spike Protein Receptor-Binding Domain Revealed by Top-Down Mass Spectrometry

Journal of the American Chemical Society ◽

10.1021/jacs.1c02713 ◽

2021 ◽

Author(s):

David S. Roberts ◽

Morgan Mann ◽

Jake A. Melby ◽

Eli J. Larson ◽

Yanlong Zhu ◽

...

Keyword(s):

Mass Spectrometry ◽

Receptor Binding ◽

Binding Domain ◽

Spike Protein ◽

Receptor Binding Domain ◽

Top Down ◽

Protein Receptor ◽

Top Down Mass Spectrometry

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TopPIC Gateway: A Web Gateway for Top-Down Mass Spectrometry Data Interpretation

Practice and Experience in Advanced Research Computing ◽

10.1145/3311790.3400853 ◽

2020 ◽

Author(s):

In Kwon Choi ◽

Eroma Abeysinghe ◽

Eric Coulter ◽

Suresh Marru ◽

Marlon Pierce ◽

...

Keyword(s):

Mass Spectrometry ◽

Data Interpretation ◽

Mass Spectrometry Data ◽

Top Down ◽

Top Down Mass Spectrometry

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Characterization and Quantification of Intact 26S Proteasome Proteins by Real-Time Measurement of Intrinsic Fluorescence Prior to Top-down Mass Spectrometry

PLoS ONE ◽

10.1371/journal.pone.0058157 ◽

2013 ◽

Vol 8 (3) ◽

pp. e58157 ◽

Cited By ~ 16

Author(s):

Jason D. Russell ◽

Mark Scalf ◽

Adam J. Book ◽

Daniel T. Ladror ◽

Richard D. Vierstra ◽

...

Keyword(s):

Mass Spectrometry ◽

Real Time ◽

Time Measurement ◽

Intrinsic Fluorescence ◽

26S Proteasome ◽

Top Down ◽

Real Time Measurement ◽

Top Down Mass Spectrometry

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Top-down mass spectrometry

Nature Methods ◽

10.1038/nmeth1162 ◽

2008 ◽

Vol 5 (1) ◽

pp. 24-24 ◽

Cited By ~ 11

Author(s):

Allison Doerr

Keyword(s):

Mass Spectrometry ◽

Top Down ◽

Top Down Mass Spectrometry

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Quantifying Positional Isomers (QPI) by Top-Down Mass Spectrometry

Molecular & Cellular Proteomics ◽

10.1016/j.mcpro.2021.100070 ◽

2021 ◽

Vol 20 ◽

pp. 100070

Author(s):

Andrea M. Brunner ◽

Philip Lössl ◽

Paul P. Geurink ◽

Huib Ovaa ◽

P. Albanese ◽

...

Keyword(s):

Mass Spectrometry ◽

Positional Isomers ◽

Top Down ◽

Top Down Mass Spectrometry

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Extensive Characterization of the Human Salivary Basic Proline-Rich Protein Family by Top-Down Mass Spectrometry

Journal of Proteome Research ◽

10.1021/acs.jproteome.8b00444 ◽

2018 ◽

Vol 17 (9) ◽

pp. 3292-3307 ◽

Cited By ~ 4

Author(s):

Alessandra Padiglia ◽

Roberto Orrù ◽

Mozhgan Boroumand ◽

Alessandra Olianas ◽

Barbara Manconi ◽

...

Keyword(s):

Mass Spectrometry ◽

Protein Family ◽

Top Down ◽

Proline Rich Protein ◽

Top Down Mass Spectrometry

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Top-Down Mass Spectrometry for Trace Level Quantification of Staphylococcal Enterotoxin A Variants

Journal of Proteome Research ◽

10.1021/acs.jproteome.1c00886 ◽

2021 ◽

Author(s):

Donatien Lefebvre ◽

François Fenaille ◽

Déborah Merda ◽

Kevin Blanco-Valle ◽

Cécile Feraudet-Tarisse ◽

...

Keyword(s):

Mass Spectrometry ◽

Staphylococcal Enterotoxin ◽

Staphylococcal Enterotoxin A ◽

Top Down ◽

Trace Level ◽

Top Down Mass Spectrometry

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