Omics approaches for the assessment of biological responses to nanoparticles

Y Abdelkader, L Perez-Davalos, R LeDuc… - Advanced Drug Delivery …, 2023 - Elsevier
Nanotechnology has enabled the development of innovative therapeutics, diagnostics, and
drug delivery systems. Nanoparticles (NPs) can influence gene expression, protein …

A guide to ancient protein studies

J Hendy, F Welker, B Demarchi, C Speller… - Nature ecology & …, 2018 - nature.com
Palaeoproteomics is an emerging neologism used to describe the application of mass
spectrometry-based approaches to the study of ancient proteomes. As with palaeogenomics …

2016 update of the PRIDE database and its related tools

JA Vizcaíno, A Csordas, N Del-Toro… - Nucleic acids …, 2016 - academic.oup.com
Abstract The PRoteomics IDEntifications (PRIDE) database is one of the world-leading data
repositories of mass spectrometry (MS)-based proteomics data. Since the beginning of …

Small extracellular vesicles obtained from hypoxic mesenchymal stromal cells have unique characteristics that promote cerebral angiogenesis, brain remodeling and …

J Gregorius, C Wang, O Stambouli, T Hussner… - Basic research in …, 2021 - Springer
Obtained from the right cell-type, mesenchymal stromal cell (MSC)-derived small
extracellular vesicles (sEVs) promote stroke recovery. Within this process, microvascular …

The first comprehensive and quantitative analysis of human platelet protein composition allows the comparative analysis of structural and functional pathways

JM Burkhart, M Vaudel, S Gambaryan… - Blood, The Journal …, 2012 - ashpublications.org
Antiplatelet treatment is of fundamental importance in combatting functions/dysfunction of
platelets in the pathogenesis of cardiovascular and inflammatory diseases. Dysfunction of …

Targeted and untargeted proteomics approaches in biomarker development

CA Sobsey, S Ibrahim, VR Richard, V Gaspar… - …, 2020 - Wiley Online Library
An enormous amount of research effort has been devoted to biomarker discovery and
validation. With the completion of the human genome, proteomics is now playing an …

The next level of complexity: crosstalk of posttranslational modifications

AS Venne, L Kollipara, RP Zahedi - Proteomics, 2014 - Wiley Online Library
Beside gene expression and translational control, which are relatively slow, PTM of proteins
represents the major level of regulation, from very fast and reversible to slow or irreversible …

Comparison of in-solution, FASP, and S-trap based digestion methods for bottom-up proteomic studies

KR Ludwig, MM Schroll… - Journal of proteome …, 2018 - ACS Publications
Bottom-up proteomic strategies rely on efficient digestion of proteins into peptides for mass
spectrometry analysis. In-solution and filter-based strategies are commonly used for …

Protein digestion: an overview of the available techniques and recent developments

L Switzar, M Giera, WMA Niessen - Journal of proteome research, 2013 - ACS Publications
Several proteomics approaches are available that are defined by the level (protein or
peptide) at which analysis takes place. The most widely applied method still is bottom-up …

Getting intimate with trypsin, the leading protease in proteomics

E Vandermarliere, M Mueller… - Mass spectrometry …, 2013 - Wiley Online Library
Nowadays, mass spectrometry‐based proteomics is carried out primarily in a bottom‐up
fashion, with peptides obtained after proteolytic digest of a whole proteome lysate as the …