From flesh to bones: Multi ‐omics approaches in forensic science
AbstractRecent advancements in omics techniques have revolutionised the study of biological systems, enabling the generation of high-throughput biomolecular data. These innovations have found diverse applications, ranging from personalised medicine to forensic sciences. While the investigation of multiple aspects of cells, tissues or entire organisms through the integration of various omics approaches (such as genomics, epigenomics, metagenomics, transcriptomics, proteomics and metabolomics) has already been established in fields like biomedicine and cancer biology, its full potential in forensic sciences remains only part...
Source: Proteomics - April 30, 2024 Category: Biochemistry Authors: Noemi Procopio, Andrea Bonicelli Tags: REVIEW Source Type: research

The cuticle proteome of a planktonic crustacean
AbstractThe cuticles of arthropods provide an interface between the organism and its environment. Thus, the cuticle's structure influences how the organism responds to and interacts with its surroundings. Here, we used label-free quantification proteomics to provide a proteome of the moulted cuticle of the aquatic crustaceanDaphnia magna, which has long been a prominent subject of studies on ecology, evolution, and developmental biology. We detected a total of 278 high-confidence proteins. Using protein sequence domain and functional enrichment analyses, we identified chitin-binding structural proteins and chitin-modifying...
Source: Proteomics - April 28, 2024 Category: Biochemistry Authors: Kathrin A. Otte, Maridel Fredericksen, Peter Fields, Thomas Fr öhlich, Christian Laforsch, Dieter Ebert Tags: DATASET BRIEF Source Type: research

Extracellular vesicles —An omics view
(Source: Proteomics)
Source: Proteomics - April 27, 2024 Category: Biochemistry Authors: David W. Greening, Alin Rai, Richard J. Simpson Tags: GUEST EDITORIAL Source Type: research

Front Cover
Cover Image © Wiley-VCH GmbH. The image is part of a figure in the article DOI:10.1002/pmic.201900203 by Lei Li, Yong Jiang et al. (Source: Proteomics)
Source: Proteomics - April 25, 2024 Category: Biochemistry Tags: FRONT COVER Source Type: research

Contents: Proteomics 9'24
(Source: Proteomics)
Source: Proteomics - April 25, 2024 Category: Biochemistry Tags: CONTENTS Source Type: research

Editorial Board: Proteomics 9'24
(Source: Proteomics)
Source: Proteomics - April 25, 2024 Category: Biochemistry Tags: EDITORIAL BOARD Source Type: research

Proteomic profiling of antibiotic ‐resistant Escherichia coli GW‐AmxH19 isolated from hospital wastewater treated with physical plasma
AbstractMicroorganisms which are resistant to antibiotics are a global threat to the health of humans and animals. Wastewater treatment plants are known hotspots for the dissemination of antibiotic resistances. Therefore, novel methods for the inactivation of pathogens, and in particular antibiotic-resistant microorganisms (ARM), are of increasing interest. An especially promising method could be a water treatment by physical plasma which provides charged particles, electric fields, UV-radiation, and reactive species. The latter are foremost responsible for the antimicrobial properties of plasma. Thus, with plasma it might...
Source: Proteomics - April 22, 2024 Category: Biochemistry Authors: Veronika Hahn, Daniela Z ühlke, Hauke Winter, Annchristin Landskron, Jörg Bernhardt, Susanne Sievers, Michael Schmidt, Thomas von Woedtke, Katharina Riedel, Juergen F. Kolb Tags: RESEARCH ARTICLE Source Type: research

The tumour ‐derived extracellular vesicle proteome varies by endometrial cancer histology and is confounded by an obesogenic environment
AbstractEndometrial cancer, the most common gynaecological cancer worldwide, is closely linked to obesity and metabolic diseases, particularly in younger women. New circulating biomarkers have the potential to improve diagnosis and treatment selections, which could significantly improve outcomes. Our approach focuses on extracellular vesicle (EV) biomarker discovery by directly profiling the proteome of EVs enriched from frozen biobanked endometrial tumours. We analysed nine tissue samples to compare three clinical subgroups —low BMI (Body Mass Index) Endometrioid, high BMI Endometrioid, and Serous (any BMI)—identifyin...
Source: Proteomics - April 22, 2024 Category: Biochemistry Authors: Anastasiia Artuyants, George Guo, Marcella Flinterman, Martin Middleditch, Bincy Jacob, Kate Lee, Laura Vella, Huaqi Su, Michelle Wilson, Lois Eva, Andrew N. Shelling, Cherie Blenkiron Tags: RESEARCH ARTICLE Source Type: research

Review of predicting protein stability changes upon variations
AbstractForecasting alterations in protein stability caused by variations holds immense importance. Improving the thermal stability of proteins is important for biomedical and industrial applications. This review discusses the latest methods for predicting the effects of mutations on protein stability, databases containing protein mutations and thermodynamic parameters, and experimental techniques for efficiently assessing protein stability in high-throughput settings. Various publicly available databases for protein stability prediction are introduced. Furthermore, state-of-the-art computational approaches for anticipatin...
Source: Proteomics - April 21, 2024 Category: Biochemistry Authors: Yiling Qiu, Tao Huang, Yu ‐Dong Cai Tags: REVIEW Source Type: research

Model fusion for predicting unconventional proteins secreted by exosomes using deep learning
In this study, we propose a novel approach to predict UPSEs by combining multiple deep learning models that incorporate both protein sequences and evolutionary information. Our approach utilizes a convolutional neural network (CNN) to extract protein sequence information, while various densely connected neural networks (DNNs) are employed to capture evolutionary conservation patterns.By combining six distinct deep learning models, we have created a superior framework that surpasses previous approaches, achieving an ACC score of 77.46% and an MCC score of 0.5406 on an independent test dataset. (Source: Proteomics)
Source: Proteomics - April 21, 2024 Category: Biochemistry Authors: Yonglin Zhang, Lezheng Yu, Ming Yang, Bin Han, Jiesi Luo, Runyu Jing Tags: RESEARCH ARTICLE Source Type: research

Front Cover
Cover Image © Wiley-VCH GmbH. The image is part of a figure in the article DOI:10.1002/pmic.201900203 by Lei Li, Yong Jiang et al. (Source: Proteomics)
Source: Proteomics - April 17, 2024 Category: Biochemistry Tags: FRONT COVER Source Type: research

Contents: Proteomics 8'24
(Source: Proteomics)
Source: Proteomics - April 17, 2024 Category: Biochemistry Tags: CONTENTS Source Type: research

Editorial Board: Proteomics 8'24
(Source: Proteomics)
Source: Proteomics - April 17, 2024 Category: Biochemistry Tags: EDITORIAL BOARD Source Type: research

Standard abbreviations
(Source: Proteomics)
Source: Proteomics - April 17, 2024 Category: Biochemistry Tags: STANDARD ABBREVIATIONS Source Type: research

From data to discovery: The essential role of computational tools in proteomics
(Source: Proteomics)
Source: Proteomics - April 17, 2024 Category: Biochemistry Authors: Wout Bittremieux Tags: GUEST EDITORIAL Source Type: research