ProSight Lite: Graphical software to analyze top‐down mass spectrometry data
Abstract
Many top‐down proteomics experiments focus on identifying and localizing PTMs and other potential sources of “mass shift” on a known protein sequence. A simple application to match ion masses and facilitate the iterative hypothesis testing of PTM presence and location would assist with the data analysis in these experiments. ProSight Lite is a free software tool for matching a single candidate sequence against a set of mass spectrometric observations. Fixed or variable modifications, including both PTMs and a select number of glycosylations, can be applied to the amino acid sequence. The application reports multiple scores and a matching fragment list. Fragmentation maps can be exported for publication in either portable network graphic (PNG) or scalable vector graphic (SVG) format. ProSight Lite can be freely downloaded from http://prosightlite.northwestern.edu , installs and updates from the web, and requires Windows 7 or a higher version.
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Complex-down data interpretation is similar to TDMS of denatured proteins; therefore, many existing software packages for TDMS can be retrofitted for complex-down data.
“Data interpretation for complex-down spectra is similar to TDMS of denatured proteins; therefore, many existing software packages for TDMS can be retrofitted for complex-down data, including ProSight PTM 2.0,115 ProSight Lite,116 MASH Suite,117–119 ProteinGoggle,120 TopPIC,121 Informed-Proteomics,122 Masstodon,123 and others.”
From Higher-order structural characterisation of native proteins and complexes by top-down mass spectrometry (2020) · cites this paper as [116]
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Modulation of Protein Fragmentation Through Carbamylation of Primary Amines
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Self-citation
- Authors
- Fellers, R. T., Greer, J. B., Early, B. P., Yu, X., LeDuc, R. D., Kelleher, N. L., & Thomas, P. M.
- Affiliations
- Northwestern University (US)
- Corresponding author
- Kelleher, Neil L.
- Thomas, Paul M.
- Venue
- PROTEOMICS
- Publisher
- Wiley
- Published
- 2015-02-26
- Volume
- 15
- Issue
- 7
- Pages
- 1235-1238
- ISSN
- 1615-9853 (ISSN-L)
- 1615-9861
- OpenAlex
- W1983285663
- Cited by
- 247
- References
- 15
- Citations by year
- 2026: 6 · 2025: 21 · 2024: 22 · 2023: 18 · 2022: 21 · 2021: 36 · 2020: 19 · 2019: 27 · 2018: 20 · 2017: 28 · 2016: 18 · 2015: 10
- FWCI
- 7.99
- Type
- journal article
- Language
- en
- Open access
- closed
- Locations
- PROTEOMICS (publishedVersion)
- PubMed (publishedVersion)
- Funders
- National Institute on Drug Abuse (P30DA018310)
- National Institute of General Medical Sciences (R01GM067193)
- Topics
- Physical Sciences › Chemistry › Spectroscopy › Advanced Proteomics Techniques and Applications
- Physical Sciences › Chemistry › Spectroscopy › Mass Spectrometry Techniques and Applications
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Machine Learning in Bioinformatics
- Keywords
- top-down mass spectrometry, post-translational modification, mass shift, glycosylation, graphics software, open source software
- MeSH terms
- Amino Acid Sequence, Humans, Molecular Weight, Protein Processing, Post-Translational, Software, Proteome, Databases, Protein, Proteomics, Tandem Mass Spectrometry, Molecular Sequence Annotation
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