Standard abbreviations
(Source: Proteomics)
Source: Proteomics - October 5, 2023 Category: Biochemistry Tags: STANDARD ABBREVIATIONS Source Type: research
Front Cover
The cover image is based on the Research ArticleGlycoblotting enables seamless and straightforward workflow for MALDI-TOF/MS-based sulphoglycomics of N- and O-glycans by Bryan M. Montalban et al.,https://doi.org/10.1002/pmic.202300012. (Source: Proteomics)
Source: Proteomics - October 5, 2023 Category: Biochemistry Tags: FRONT COVER Source Type: research
Contents: Proteomics 19'23
(Source: Proteomics)
Source: Proteomics - October 5, 2023 Category: Biochemistry Tags: CONTENTS Source Type: research
Editorial Board: Proteomics 19'23
(Source: Proteomics)
Source: Proteomics - October 5, 2023 Category: Biochemistry Tags: EDITORIAL BOARD Source Type: research
Standard abbreviations
(Source: Proteomics)
Source: Proteomics - October 5, 2023 Category: Biochemistry Tags: STANDARD ABBREVIATIONS Source Type: research
TopDownApp: An open and modular platform for analysis and visualisation of top ‐down proteomics data
AbstractAlthough Top-down (TD) proteomics techniques, aimed at the analysis of intact proteins and proteoforms, are becoming increasingly popular, efforts are needed at different levels to generalise their adoption. In this context, there are numerous improvements that are possible in the area of open science practices, including a greater application of the FAIR (Findable, Accessible, Interoperable, and Reusable) data principles. These include, for example, increased data sharing practices and readily available open data standards. Additionally, the field would benefit from the development of open data analysis workflows ...
Source: Proteomics - October 4, 2023 Category: Biochemistry Authors: Mathias Walzer,
Kyowon Jeong,
David L. Tabb,
Juan Antonio Vizca íno Tags: TECHNICAL BRIEF Source Type: research
Rapid and in ‐depth proteomic profiling of small extracellular vesicles for ultralow samples
AbstractThe integration of robust single-pot, solid-phase-enhanced sample preparation with powerful liquid chromatography-tandem mass spectrometry (LC-MS/MS) is routinely used to define the extracellular vesicle (EV) proteome landscape and underlying biology. However, EV proteome studies are often limited by sample availability, requiring upscaling cell cultures or larger volumes of biofluids to generate sufficient materials. Here, we have refined data independent acquisition (DIA)-based MS analysis of EV proteome by optimizing both protein enzymatic digestion and chromatography gradient length (ranging from 15 to 44 min...
Source: Proteomics - October 3, 2023 Category: Biochemistry Authors: Jonathon Cross,
Alin Rai,
Haoyun Fang,
Bethany Claridge,
David W. Greening Tags: RESEARCH ARTICLE Source Type: research
Substantial downregulation of mitochondrial and peroxisomal proteins during acute kidney injury revealed by data ‐independent acquisition proteomics
In this study, mouse kidneys were subjected to ischemia-reperfusion injury, and the contralateral kidneys remained uninjured to enable comparison and assess injury-induced changes in the kidney proteome. A ZenoTOF 7600 mass spectrometer was optimized for data-independent acquisition (DIA) to achieve comprehensive protein identification and quantification. Short microflow gradients and the generation of a deep kidney-specific spectral library allowed for high-throughput, comprehensive protein quantification. Upon AKI, the kidney proteome was completely remodeled, and over half of the 3945 quantified protein groups changed s...
Source: Proteomics - October 2, 2023 Category: Biochemistry Authors: Jordan B. Burton,
Anne Silva ‐Barbosa,
Joanna Bons,
Jacob Rose,
Katherine Pfister,
Fabia Simona,
Tejas Gandhi,
Lukas Reiter,
Oliver Bernhardt,
Christie L. Hunter,
Eric S. Goetzman,
Sunder Sims‐Lucas,
Birgit Schilling Tags: RESEARCH ARTICLE Source Type: research
MassSpecPreppy —An end‐to‐end solution for automated protein concentration determination and flexible sample digestion for proteomics applications
AbstractIn proteomics, fast, efficient, and highly reproducible sample preparation is of utmost importance, particularly in view of fast scanning mass spectrometers enabling analyses of large sample series. To address this need, we have developed the web application MassSpecPreppy that operates on the open science OT-2 liquid handling robot from Opentrons. This platform can prepare up to 96 samples at once, performing tasks like BCA protein concentration determination, sample digestion with normalization, reduction/alkylation and peptide elution into vials or loading specified peptide amounts onto Evotips in an automated a...
Source: Proteomics - September 29, 2023 Category: Biochemistry Authors: Alexander Reder,
Christian Hentschker,
Leif Steil,
Manuela Gesell Salazar,
Elke Hammer,
Vishnu M. Dhople,
Thomas Sura,
Ulrike Lissner,
Hannes Wolfgramm,
Denise Dittmar,
Marco Harms,
Kristin Surmann,
Uwe V ölker,
Stephan Michalik Tags: RESEARCH ARTICLE Source Type: research
Immortalized mouse caput epididymal epithelial (mECap18) cell line recapitulates the in ‐vivo environment
We report the identification of 5,313 mECap18 proteins, as many as 75.8% of which were also identified in caput epithelial cells wherein they mapped to broadly similar protein classification groupings. Furthermore, key pathways associated with protein synthesis (e.g., EIF2 signaling) and cellular protection in the male reproductive tract (e.g., sirtuin signaling) were enriched in both proteomes. This comparison supports the utility of the mECap18 cell line as a tractablein-vitro model for studying caput epididymal epithelial cell function. (Source: Proteomics)
Source: Proteomics - September 28, 2023 Category: Biochemistry Authors: Jess E. Mulhall,
Natalie A. Trigg,
Ilana R. Bernstein,
Amanda L. Anderson,
Heather C. Murray,
Petra Sipil ä,
Tessa Lord,
John E. Schjenken,
Brett Nixon,
David A. Skerrett‐Byrne Tags: DATASET BRIEF Source Type: research
