ProteoCombiner: integrating bottom-up with top-down proteomics data for improved proteoform assessment Article Swipe
Diogo Borges Lima
,
Mathieu Dupré
,
Magalie Duchateau
,
Quentin Giai Gianetto
,
Martial Rey
,
Mariette Matondo
,
Julia Chamot‐Rooke
·
YOU?
·
· 2020
· Open Access
·
· DOI: https://doi.org/10.1093/bioinformatics/btaa958
YOU?
·
· 2020
· Open Access
·
· DOI: https://doi.org/10.1093/bioinformatics/btaa958
Motivation We present a high-performance software integrating shotgun with top-down proteomic data. The tool can deal with multiple experiments and search engines. Enable rapid and easy visualization, manual validation and comparison of the identified proteoform sequences including the post-translational modification characterization. Results We demonstrate the effectiveness of our approach on a large-scale Escherichia coli dataset; ProteoCombiner unambiguously shortlisted proteoforms among those identified by the multiple search engines. Availability and implementation ProteoCombiner, a demonstration video and user tutorial are freely available at https://proteocombiner.pasteur.fr, for academic use; all data are thus available from the ProteomeXchange consortium (identifier PXD017618). Supplementary information Supplementary data are available at Bioinformatics online.
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- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.1093/bioinformatics/btaa958
- https://academic.oup.com/bioinformatics/article-pdf/37/15/2206/39622362/btaa958.pdf
- OA Status
- bronze
- Cited By
- 8
- References
- 16
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W3099850510
All OpenAlex metadata
Raw OpenAlex JSON
- OpenAlex ID
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https://openalex.org/W3099850510Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.1093/bioinformatics/btaa958Digital Object Identifier
- Title
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ProteoCombiner: integrating bottom-up with top-down proteomics data for improved proteoform assessmentWork title
- Type
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articleOpenAlex work type
- Language
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enPrimary language
- Publication year
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2020Year of publication
- Publication date
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2020-11-02Full publication date if available
- Authors
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Diogo Borges Lima, Mathieu Dupré, Magalie Duchateau, Quentin Giai Gianetto, Martial Rey, Mariette Matondo, Julia Chamot‐RookeList of authors in order
- Landing page
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https://doi.org/10.1093/bioinformatics/btaa958Publisher landing page
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https://academic.oup.com/bioinformatics/article-pdf/37/15/2206/39622362/btaa958.pdfDirect link to full text PDF
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YesWhether a free full text is available
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bronzeOpen access status per OpenAlex
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https://academic.oup.com/bioinformatics/article-pdf/37/15/2206/39622362/btaa958.pdfDirect OA link when available
- Concepts
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Computer science, Identifier, Software, Visualization, Shotgun, Data mining, Shotgun proteomics, Information retrieval, Proteomics, Programming language, Biology, Gene, BiochemistryTop concepts (fields/topics) attached by OpenAlex
- Cited by
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8Total citation count in OpenAlex
- Citations by year (recent)
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2025: 3, 2023: 2, 2022: 3Per-year citation counts (last 5 years)
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16Number of works referenced by this work
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-
10Other works algorithmically related by OpenAlex
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