OmicScope unravels systems-level insights from quantitative proteomics data

Autor(es)

Reis-de-Oliveira, Guilherme ; Carregari, Victor Corasolla ; de Sousa, Gabriel Rodrigues dos Reis ; Martins-de-Souza, Daniel

• Tipo de documento: Artigo Científico
• Fonte: NATURE COMMUNICATIONS; v. 15, n. 1, p. 12-pg., 2024-08-02.

Resumo

Shotgun proteomics analysis presents multifaceted challenges, demanding diverse tool integration for insights. Addressing this complexity, OmicScope emerges as an innovative solution for quantitative proteomics data analysis. Engineered to handle various data formats, it performs data pre-processing - including joining replicates, normalization, data imputation - and conducts differential proteomics analysis for both static and longitudinal experimental designs. Empowered by Enrichr with over 224 databases, OmicScope performs Over Representation Analysis (ORA) and Gene Set Enrichment Analysis (GSEA). Additionally, its Nebula module facilitates meta-analysis from independent datasets, providing a systems biology approach for enriched insights. Complete with a data visualization toolkit and accessible as Python package and a web application, OmicScope democratizes proteomics analysis, offering an efficient and high-quality pipeline for researchers. Analysing shotgun proteomics data is challenging due to diverse research questions. Here, authors introduce OmicScope, a computational tool available via both programming language and web platform, designed to analyze and integrate complex omics data from differential proteomics to meta-analysis. (AU)

• Processo FAPESP: 17/25588-1 - Da compreensão básica a biomarcadores clínicos para a esquizofrenia: um estudo multidisciplinar centrado na neuroproteômica
• Beneficiário: Daniel Martins-de-Souza
• Modalidade de apoio: Auxílio à Pesquisa - Temático
• Processo FAPESP: 23/04767-6 - Explorando as modificações pós-traducionais em cérebros pós-morte de pacientes com esquizofrenia
• Beneficiário: Victor Corasolla Carregari
• Modalidade de apoio: Bolsas no Exterior - Estágio de Pesquisa - Pós-Doutorado
• Processo FAPESP: 18/01410-1 - Avaliação dos efeitos da clozapina em células do sistema imune
• Beneficiário: Guilherme Reis-De-Oliveira
• Modalidade de apoio: Bolsas no Brasil - Doutorado Direto
• Processo FAPESP: 19/05155-9 - O papel do glicoproteoma e do fosfoproteoma durante a diferenciação neuronal na esquizofrenia
• Beneficiário: Victor Corasolla Carregari
• Modalidade de apoio: Bolsas no Brasil - Pós-Doutorado