Combined RSS Items
- ABSTRACT In the 1980s, researchers discovered the remarkable ability of electrospray plumes to effectively ionize gas-phase molecules via secondary ionization. Around 20 years later—coinciding with the ambient mass spectrometry revolution—secondary electrospray ionization (SESI) and extractive electrospray ionization (EESI) coupled to mass spectrometry were revisited and further developed to analyze complex mixtures of gas and aerosol samples in real-time yet with high sensitivity. During the past two decades, these mass spectrometric techniques have been applied across a broad range of applications, […]
- Complete360: A Multi-Omics Liquid Biopsy Platform with Attomole Sensitivity and High ReproducibilityAdvancements in liquid biopsy platforms can uncovered disease-associated molecular changes that may indicate disease. Despite recent progress in the detection of a number of analytes, the current liquid biopsy platforms struggle with specificity, sensitivity, and reproducibility, limiting their clinical utility and high-throughput applicability. Here, we describe an ultra-sensitive mass spectrometry-based liquid biopsy platform, Complete360, with an optimized library of detection parameters, meticulously refined assays to enable the simultaneous detection and quantification of a broad range of body-fluid proteins, metabolites, and […]
- Mass spectrometry-based metaproteomics, the identification and quantification of thousands of proteins expressed by complex microbial communities, has become pivotal for unraveling functional interactions within microbiomes. However, metaproteomics data analysis encounters many challenges, including the search of tandem mass spectra against a protein sequence database using proteomics database search algorithms. We used a ground-truth dataset to assess a spectral library searching method against established database searching approaches. Mass spectrometry data collected by data-dependent acquisition (DDA-MS) was analyzed using database searching approaches […]
- In a recent publication, Lange et al.1 proposed an 11-spoked wheel model for the mitochondrial prohibitin complex consisting of six PHB1 and five PHB2 subunits built into low resolution density obtained from 11-fold symmetry averaging. The proposed unequal stoichiometry is inherently incompatible with symmetry. The building of an asymmetric molecular model into density obtained by 11-fold symmetry averaging is inherently self-contradictory. This contradiction alone calls the validity of the derived structure into question. Our own data revealed that the complex […]
- Chemistry – A European Journal, Accepted Article.
- Mascot newsletter, May 2025:ASMS User Meeting registration is open.Oxygen metabolism in horses.Big databases and large peak lists.https://www.matrixscience.com/nl/202505/newsletter.html#proteomics #massspec
- Anal. Methods, 2025, Accepted ManuscriptDOI: 10.1039/D5AY00359H, PaperYong-Hai Yuan, Feng Yang, Qiu Zhang, Qinghong Xu, Meilan WenThis study focuses on comparing the performance of pneumatic nebulization (PN), hydride generation (HG), and photochemical vapor generation (PVG) sampling modes coupled with inductively coupled plasma mass spectrometry (ICP-MS) for…The content of this RSS Feed (c) The Royal Society of Chemistry
- Microsamples are simple blood sampling procedures utilizing small blood draws. Although microsamples are regularly used in some disciplines, proteomic analysis of these samples is an emerging field. Currently,…
- Early maize planting requires cold tolerance in temperate regions, which elite maize lacks. Extending the growing season could boost productivity along with more efficient nutrient use. Wild PACMAD grasses have each independently evolved freezing tolerance. To uncover the molecular basis of this convergence, we performed tandem mass tag labeling with shotgun mass spectrometry to measure protein abundance in rhizome tissues sampled during winter dormancy and summer activity. Our study examined five species: Panicum virgatum, Andropogon gerardii, Miscanthus giganteus, Sorghastrum nutans […]
- 5-Azacitidine (Aza) and 5-Aza-2-deoxycytidine (Dac) are widely used demethylating drugs that directly integrate into nucleic acids. They are frequently used interchangeably, surprisingly as their selectivity is unique from the other, with no predictors of response or clinical biomarkers to indicate drug preference. Using these drugs to induce demethylation, we combine DRIPc-Seq, Immunostaining, RNA-Seq and Mass spectrometry to uncover unique cellular responses. Activation of p53, exclusively by Aza, sustained accumulation of R-loops in CpG islands of p53 target genes. This effect […]
- The assessment of analyte recovery during sample preparation is a critical quality control parameter in method development. While elemental mass spectrometry techniques, such as ICP-MS, are very effective for assessing the recovery of particulate materials containing metallic elements, there is no equivalent applicable to metal-free carbon or CHNO-based particulate polymer materials. Vibrational spectro-microscopy or thermo-analytical techniques can be used to quantify polymer-based micro- and nanoparticles, but are typically expensive and time-consuming techniques that require higher levels of expertise. This study […]
- I had to sleep on this one and then find out that the coolest new toy I received for my lab needs to charge before I can try it out –(not this paper – the fact I have to charge a device that I think will dramatically improve life in my lab and that while charging it I realized it has instructions I'm supposed to read) And now I think I get it. Remember BoxCar? I vaguely do, but it worked in […]
- Energy deficit is a potent physiological stressor that has shaped human evolution and can improve lifespan and healthspan in a wide range of species. Preserving locomotive capacity was likely essential for survival during the human hunter-gatherer period but surprisingly little is known about the molecular effects of energy deficit on human skeletal muscle, which is a key tissue for locomotion and metabolic health. Here we show that a 5-day 78% reduction in energy availability with concomitant aerobic exercise in healthy […]
- Jasminum sambac (L.) Aiton, commonly known as Arabian jasmine, is widely used in Thai traditional medicine for mental health ailments. While most studies in humans and animals find that Arabian jasmine reduces stress and anxiety, there are a handful of reports that it can oppose relaxation by increasing autonomic arousal. Using adult zebrafish, we sought to determine whether factors like strain, sex, and personality might contribute to the variable effects of J. sambac on anxiety-related behavior. The flowers of J. […]
- As part of the non-sponsored sporadic "B-sides" series*, Ben and Ben sit down and talk with Dr. Anna Barker, Chief Strategy Officer at the Ellison Medical Institute and Co-Director of CAS-Biomedicine at Arizona State University.(* this series is where we put guests we want to talk to but who do not fit within any sponsored series, but is still proteomics…. mostly)
- Hepatocellular carcinoma is one of the leading causes of death with a higher prevalence in males compared to females due to distinct progression and pathogenesis patterns in both genders. This study aimed at creating, characterizing, and proteome profiling, a DEN-induced HCC model of male and female Balb/c mice. Proteins were extracted from characterized mouse models and subjected to mass spectrometry and subsequent bioinformatics analysis. The results revealed that the differentially enriched signaling pathways in treated female mice were mainly belonged […]
- The antigen presenting molecule MHC class I-related protein 1 (MR1) binds small molecule metabolites derived from microbial riboflavin biosynthetic pathways and presents them at the cell surface for surveillance by MR1-restricted mucosal-associated invariant T cells (MAIT cells). MR1 ligands can originate in the extracellular space or in endosomal compartments that contain microbial pathogens. Distinct, complementary antigen processing and presentation pathways enable MR1 to survey diverse intracellular locations and present both exogenous and intracellular antigens. Here, we generated a panel of […]
- Journal of Mass Spectrometry, Volume 60, Issue 6, June 2025.
- Phosphorylation, a crucial post-translational modification (PTM), plays a central role in cellular signaling and disease mechanisms. Mass spectrometry-based phosphoproteomics is widely used for system-wide characterization of phosphorylation events. However, traditional methods struggle with accurate phosphorylated site localization, complex search spaces, and detecting sequences outside the reference database. Advances in de novo peptide sequencing offer opportunities to address these limitations, but have yet to become integrated and adapted for phosphoproteomics datasets. Here, we present InstaNovo-P, a phosphorylation specific version of our […]
- Obesity-associated metabolic disorders such as type 2 diabetes mellitus and metabolic dysfunction associated fatty liver disease are major global health concerns, yet current pharmacological treatments often present with major side-effects. Dietary interventions including polyphenol-rich foods offer a promising complementary option for obesity amelioration, but their efficacy is dependent on specific gut microbial metabolism and the underlying molecular mechanisms mostly remain elusive. Here, we demonstrated that dietary elderberry (Eld) extract abrogates the effects of an obesogenic diet in a gut microbiota-dependent […]
- Publication date: Available online 18 May 2025Source: Journal of ProteomicsAuthor(s): Vasti T. Juárez-González, Eduardo Luján-Soto, Paola Aguirre de la Cruz, Mayra Aquino-Luna, Jorge Herrera-Díaz, Brenda A. López-Ruiz, Tzvetanka D. Dinkova
- Publication date: Available online 17 May 2025Source: Journal of ProteomicsAuthor(s): Brittannie Willis, Harry J. Whitwell
- Publication date: Available online 17 May 2025Source: Journal of ProteomicsAuthor(s): Eliel Ruiz-May, Esaú Bojórquez-Velázquez, Humberto Carrasco-Vargas, Silverio Soto-Alvarez, Laura S. Rangel-Cova, Marco Antonio Vargas-Hernández, José M. Elizalde-Contreras, Víctor M. Torres De La Cruz, Armando Vilchis-Ordoñez, Miguel Ángel Palomo-Colli, Tania Angeles Floriano, Israel Parra Ortega, Rosana Pelayo-Camacho, Lidia F.E. Huerta-Nuñez
- ABSTRACT Inocutis tamaricis is a medicinal fungus with significant pharmacological activity. In this study, ultra-high performance liquid chromatography-high resolution mass spectrometry (UPLC/MS) was used to conduct a comprehensive non-targeted metabolomics analysis of the metabolites of wild fruiting body (WF), cultured fruiting body (CF), and liquid cultured mycelium (LCM). Orthogonal partial least square discriminant analysis (OPLS-DA) was used to compare the three culture methods, to describe the regulatory effect of specific culture methods on metabolite distribution and yield of I. tamaricis, […]
- Biomedical Chromatography, Volume 39, Issue 7, July 2025.