mzStudio: A Dynamic Digital Canvas for User-Driven Interrogation of Mass Spectrometry Data
| العنوان: | mzStudio: A Dynamic Digital Canvas for User-Driven Interrogation of Mass Spectrometry Data |
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| المؤلفون: | Jarrod A. Marto, William M. Alexander, Scott B. Ficarro |
| المصدر: | Proteomes; Volume 5; Issue 3; Pages: 20 Proteomes Proteomes, Vol 5, Iss 3, p 20 (2017) |
| بيانات النشر: | Multidisciplinary Digital Publishing Institute, 2017. |
| سنة النشر: | 2017 |
| مصطلحات موضوعية: | 0301 basic medicine, bioinformatics software, mass spectrometry, quantification, results distribution, API, application programming interface, SQLite, Computer science, Clinical Biochemistry, lcsh:QR1-502, computer.software_genre, 01 natural sciences, Biochemistry, lcsh:Microbiology, Article, 03 medical and health sciences, Software, Mascot, Structural Biology, Human proteome project, Graphics, Molecular Biology, Graphical user interface, computer.programming_language, Information retrieval, Application programming interface, 010405 organic chemistry, business.industry, Python (programming language), 0104 chemical sciences, 030104 developmental biology, Data analysis, Data mining, business, computer |
| الوصف: | Although not yet truly ‘comprehensive’, modern mass spectrometry-based experiments can generate quantitative data for a meaningful fraction of the human proteome. Importantly for large-scale protein expression analysis, robust data pipelines are in place for identification of un-modified peptide sequences and aggregation of these data to protein-level quantification. However, interoperable software tools that enable scientists to computationally explore and document novel hypotheses for peptide sequence, modification status, or fragmentation behavior are not well-developed. Here, we introduce mzStudio, an open-source Python module built on our multiplierz project. This desktop application provides a highly-interactive graphical user interface (GUI) through which scientists can examine and annotate spectral features, re-search existing PSMs to test different modifications or new spectral matching algorithms, share results with colleagues, integrate other domain-specific software tools, and finally create publication-quality graphics. mzStudio leverages our common application programming interface (mzAPI) for access to native data files from multiple instrument platforms, including ion trap, quadrupole time-of-flight, Orbitrap, matrix-assisted laser desorption ionization, and triple quadrupole mass spectrometers and is compatible with several popular search engines including Mascot, Proteome Discoverer, X!Tandem, and Comet. The mzStudio toolkit enables researchers to create a digital provenance of data analytics and other evidence that support specific peptide sequence assignments. |
| وصف الملف: | application/pdf |
| اللغة: | English |
| تدمد: | 2227-7382 |
| DOI: | 10.3390/proteomes5030020 |
| URL الوصول: | https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6573fb746e088852bafef36043583886 |
| حقوق: | OPEN |
| رقم الأكسشن: | edsair.doi.dedup.....6573fb746e088852bafef36043583886 |
| قاعدة البيانات: | OpenAIRE |
| تدمد: | 22277382 |
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| DOI: | 10.3390/proteomes5030020 |