A crustacean neuropeptide spectral library for data ‐independent acquisition (DIA) mass spectrometry applications
AbstractNeuropeptides have tremendous potential for application in modern medicine, including utility as biomarkers and therapeutics. To overcome the inherent challenges associated with neuropeptide identification and characterization, data-independent acquisition (DIA) is a fitting mass spectrometry (MS) method of choice to achieve sensitive and accurate analysis. It is advantageous for preliminary neuropeptidomic studies to occur in less complex organisms, with crustacean models serving as a popular choice due to their relatively simple nervous system. With spectral libraries serving as a means to interpret DIA-MS output...
Source: Proteomics - January 4, 2024 Category: Biochemistry Authors: Lauren Fields,
Min Ma,
Kellen DeLaney,
Ashley Phetsanthad,
Lingjun Li Tags: DATASET BRIEF Source Type: research
The multifaceted roles of small extracellular vesicles in metabolic reprogramming in the tumor microenvironments
AbstractThe link between metabolism and tumor progression has been extensively researched for a long time. With the increasing number of studies uncovering the multiple functions of metabolic reprogramming in tumor microenvironments, the regulatory network seems to become even more intricate at the same time. Small extracellular vesicles (sEV), as crucial mediators facilitating intercellular communications, exhibit significant involvement in regulating metabolic reprogramming within the complicated network of tumor microenvironments. sEV derived from tumor cells and those released by other cell populations such as tumor-...
Source: Proteomics - January 4, 2024 Category: Biochemistry Authors: Zhixian Chen,
Judy Wai Ping Yam,
Xiaowen Mao Tags: REVIEW Source Type: research
Defining the relationship between cellular and extracellular vesicle (EV) content in breast cancer via an integrative multi ‐omic analysis
AbstractMuch recent research has been dedicated to exploring the utility of extracellular vesicles (EVs) as circulating disease biomarkers. Underpinning this work is the assumption that the molecular cargo of EVs directly reflects the originating cell. Few attempts have been made, however, to empirically validate this on the -omic level. To this end, we have performed an integrative multi-omic analysis of a panel of breast cancer cell lines and corresponding EVs. Whole transcriptome analysis validated that the cellular transcriptome remained stable when cultured cells are transitioned to low serum or serum-free medium for ...
Source: Proteomics - January 3, 2024 Category: Biochemistry Authors: Rebecca E. Lane,
Darren Korbie,
Kum Kum Khanna,
Ahmed Mohamed,
Michelle M. Hill,
Matt Trau Tags: RESEARCH ARTICLE Source Type: research
Flash MS/MS proteotyping allows identifying microbial isolates in 36 s of mass spectrometry signal
AbstractRapid identification of microorganisms is essential for medical diagnostics, sanitary controls, and food safety. High-throughput analytical platforms currently rely on whole-cell MALDI-TOF mass spectrometry to process hundreds of samples per day. Although this technology has become a reference method, it is unable to process most environmental isolates and opportunistic pathogens due to an incomplete experimental spectrum database. In most cases, its discriminating power is limited to the species taxonomical rank. By recording much more sequence information at the peptide level, proteotyping by tandem mass spectrom...
Source: Proteomics - January 3, 2024 Category: Biochemistry Authors: Madisson Chabas,
Jean ‐Charles Gaillard,
Béatrice Alpha‐Bazin,
Jean Armengaud Tags: TECHNICAL BRIEF Source Type: research
Mechanism of action of pseudopteroxazole and pseudopterosin G: Diterpenes from marine origin
This article is protected by copyright. All rights reserved (Source: Proteomics)
Source: Proteomics - December 30, 2023 Category: Biochemistry Authors: Niklas B. M. Janzing,
Christoph H. R. Senges,
Pascal Dietze,
Bradley Haltli,
Douglas H. Marchbank,
Russell G. Kerr,
Julia E. Bandow Tags: RESEARCH ARTICLE Source Type: research
Integration of proteomics in the molecular tumor board
AbstractCancer remains one of the most complex and challenging diseases in mankind. To address the need for a personalized treatment approach for particularly complex tumor cases, molecular tumor boards (MTBs) have been initiated. MTBs are interdisciplinary teams that perform in-depth molecular diagnostics to cooperatively and interdisciplinarily advise on the best therapeutic strategy. Current molecular diagnostics are routinely performed on the transcriptomic and genomic levels, aiming to identify tumor-driving mutations. However, these approaches can only partially capture the actual phenotype and the molecular key play...
Source: Proteomics - December 25, 2023 Category: Biochemistry Authors: Johanna Thiery,
Matthias Fahrner Tags: REVIEW Source Type: research
Integration of single ‐cell proteomic datasets through distinctive proteins in cell clusters
AbstractThe use of mass spectrometry and antibody-based sequencing technologies at the single-cell level has led to an increase in single-cell proteomic datasets. Integrating these datasets is crucial to eliminate the batch effect that often arises due to their limited sequencing molecules. Although methods for horizontally integrating high-dimensional single-cell transcriptomic datasets can also be applied to single-cell proteomic datasets, a specialized approach explicitly tailored for low-dimensional proteomic datasets may enhance the integration process. Here, we introduce SCPRO-HI, an algorithm for the horizontal inte...
Source: Proteomics - December 23, 2023 Category: Biochemistry Authors: Mehmet Burak Koca,
Fatih Erdo ğan Sevilgen Tags: RESEARCH ARTICLE Source Type: research
Global quantitative proteomic analysis of aged mouse hippocampus
AbstractUnderstanding the molecular changes associated with the aged brain forms the basis for developing potential strategies for slowing cognitive decline associated with normal aging. Focusing on the hippocampus, a critical brain region involved in learning and memory, we employed tandem mass tag methodology to investigate global proteomic changes that occur in advanced-aged (20-month) versus young (3-month) C57BL/6 male mice. Our analysis revealed the upregulation of 236 proteins in the old hippocampal proteome, including those enriched within several age-related processes, such as the adaptive immune response and mole...
Source: Proteomics - December 20, 2023 Category: Biochemistry Authors: He Huang,
Ashley J. van Waardenberg,
Mark E. Graham,
Victor Anggono,
Jocelyn Widagdo Tags: DATASET BRIEF Source Type: research
