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Projeto de investigação
Unlocking the secrets of sumoylation and phosphorylation crosstalk in neurodegeneration using new sumo/phospho-nano traps and quantitative proteomics
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How to dissect viral infections and their interplay with the host-proteome by immunoaffinity and mass spectrometry
Publication . Santos, Hugo M.; Carvalho, Luís B.; Lodeiro, Carlos; Martins, Gonçalo; Gomes, Inês L.; Antunes, Wilson D. T.; Correia, Vanessa; Almeida-Santos, Maria M.; Rebelo-de-Andrade, Helena; Matos, António P. A.; Capelo, J. L.; LAQV@REQUIMTE; DQ - Departamento de Química; Elsevier
The capabilities of bioanalytical mass spectrometry to (i) detect and differentiate viruses at the peptide level whilst maintaining high sample throughput and (ii) to provide diagnosis and prognosis for infected patients are presented as a tutorial in this work to aid analytical chemists and physicians to gain insights into the possibilities offered by current high-resolution mass spectrometry technology and bioinformatics. From (i) sampling to sample treatment; (ii) Matrix-Assisted Laser Desorption Ionization- to Electrospray Ionization -based mass spectrometry; and (iii) from clustering to peptide sequencing; a detailed step-by-step guide is provided and exemplified using SARS-CoV-2 Spike Y839 variant and the variant of concern SARS-CoV-2 Alpha (B.1.1.7 lineage), Influenza B, and Influenza A subtypes AH1N1pdm09 and AH3N2.
Pathway-guided monitoring of the disease course in bladder cancer with longitudinal urine proteomics
Publication . Carvalho, Luís Botelho; Capelo, José Luís; Lodeiro, Carlos; Dhir, Rajiv; Pinheiro, Luís Campos; Lopez-Fernandez, Hugo; Martins, Gonçalo; Medeiros, Mariana; Díaz, Fernando; Santos, Hugo Miguel; DQ - Departamento de Química; LAQV@REQUIMTE; NOVA Medical School|Faculdade de Ciências Médicas (NMS|FCM); Springer Nature
Background Monitoring bladder cancer over time requires invasive and costly procedures. Less invasive approaches are required using readily available biological samples such as urine. In this study, we demonstrate a method for longitudinal analysis of the urine proteome to monitor the disease course in patients with bladder cancer. Methods We compared the urine proteomes of patients who experienced recurrence and/or progression (n = 13) with those who did not (n = 17). We identified differentially expressed proteins within various pathways related to the hallmarks of cancer. The variation of such pathways during the disease course was determined using our differential personal pathway index (dPPi) calculation, which could indicate disease progression and the need for medical intervention. Results Seven hallmark pathways are used to develop the dPPi. We demonstrate that we can successfully longitudinally monitor the disease course in bladder cancer patients through a combination of urine proteomic analysis and the dPPi calculation, over a period of 62 months. Conclusions Using the information contained in the patient’s urinary proteome, the dPPi reflects the individual’s course of bladder cancer, and helps to optimise the use of more invasive procedures such as cystoscopy.
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Fundação para a Ciência e a Tecnologia
Programa de financiamento
OE
Número da atribuição
SFRH/BD/139384/2018