Avant-garde: an automated data-driven DIA data curation tool.
Nat Methods
; 17(12): 1237-1244, 2020 12.
Article
en En
| MEDLINE
| ID: mdl-33199889
ABSTRACT
Several challenges remain in data-independent acquisition (DIA) data analysis, such as to confidently identify peptides, define integration boundaries, remove interferences, and control false discovery rates. In practice, a visual inspection of the signals is still required, which is impractical with large datasets. We present Avant-garde as a tool to refine DIA (and parallel reaction monitoring) data. Avant-garde uses a novel data-driven scoring strategy signals are refined by learning from the dataset itself, using all measurements in all samples to achieve the best optimization. We evaluate the performance of Avant-garde using benchmark DIA datasets and show that it can determine the quantitative suitability of a peptide peak, and reach the same levels of selectivity, accuracy, and reproducibility as manual validation. Avant-garde is complementary to existing DIA analysis engines and aims to establish a strong foundation for subsequent analysis of quantitative mass spectrometry data.
Texto completo:
1
Base de datos:
MEDLINE
Asunto principal:
Proteoma
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Proteómica
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Curaduría de Datos
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Ciencia de los Datos
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Análisis de Datos
Tipo de estudio:
Guideline
/
Prognostic_studies
Idioma:
En
Revista:
Nat Methods
Asunto de la revista:
TECNICAS E PROCEDIMENTOS DE LABORATORIO
Año:
2020
Tipo del documento:
Article