• and there is significant demand for mass spectrometry (MS) based proteomics tools that can be used to rapidly quantify large numbers of proteins using simple sample preparation. (genomebc.ca)
  • While quantitative multiple reaction monitoring mass spectrometry (MRM-MS) assays have already been established to measure proteins in human fluids, similar assays have yet to be developed in mice, despite their key role in drug development and biomedical research. (genomebc.ca)
  • Here, we employ stable isotope labeling with amino acids in cell culture (SILAC)-based proteomics to quantify the response of over 6200 proteins to increasing concentrations of tunicamycin in HeLa cells. (torvergata.it)
  • She is currently Chair of BBSRC Committee D. Alongside Professors Sabine Flitsch and Perdita Barran, Eyers is also Co-founder and Scientific Director of Bio-Shape Ltd[citation needed], a company specialising in the analysis of proteins, carbohydrates and their conjugates using mass spectrometry-based methods[citation needed]. (wikipedia.org)
  • Eyers' work in biological mass spectrometry focuses on the global and targeted analysis of post-translational modification on proteins[citation needed]. (wikipedia.org)
  • While proteomics typically aims to quantify as many proteins as possible, many of the biological questions that are to be addressed also necessitate the processing of large sample series. (elifesciences.org)
  • Here, we describe a new method (immuno-SILAC) for the absolute quantification of proteins in complex samples based on polyclonal antibodies and stable isotope-labeled recombinant protein fragments to allow affinity enrichment prior to mass spectrometry analysis and accurate quantification. (nih.gov)
  • Here, we show that we were able to use small amounts of antibodies (50 ng per target) in this manner for efficient multiplex analysis of quantitative levels of proteins in a human HeLa cell lysate. (nih.gov)
  • These biotin labels were then detected in live mice using a method called quantitative mass spectrometry proteomics, which is used to measure proteins in a sample. (indiatimes.com)
  • The mass spectrometer enables analysis of thousands of samples without loss in performance, delivers accurate and reproducible quantitation of thousands of proteins. (thermofisher.com)
  • The results showed that a total of 278 proteins with significant changes were identified by quantitative proteomic analysis, of which 118 proteins were significantly upregulated and 160 proteins were significantly downregulated in myocardial tissue. (frontiersin.org)
  • Quantitative measurements derived from the MS technology can be translated into differential expression of proteins in biological samples, and collective molecular changes can then be used to describe complex phenotypes such as disease progression. (openaccesspub.org)
  • Mass spectrometry (MS)-based proteomics is an increasingly powerful analysis method that allows identification and quantitation of thousands of proteins simultaneously. (labroots.com)
  • MS methods used to analyze proteins fall into one of two categories:Â bottom-up proteomics, where proteins are first digested into peptides followed by analysis with the mass spectrometer or top-down proteomics, that analyzes the. (labroots.com)
  • Although proteomics isn't exactly stuck-it is chugging along thanks to mass spectrometry (MS)-it sometimes spins its wheels because the world of proteins is particularly slippery. (genengnews.com)
  • She will employ quantitative mass spectrometry-based proteomics to investigate how histones and other chromatin-associated proteins are modified by ubiquitin during the process of DNA repair. (imb.de)
  • This document defines an XML schema that can be used to describe the outputs of quantification software for proteomics (quantitative values about peptides and proteins) and potentially metabolomics (quantitative values about small molecules), derived from analysis of mass spectrometry data. (psidev.info)
  • Matrix-assisted laser desorption/ionization imaging mass spectrometry (MALDI IMS) is a powerful tool for the visualization of proteins in tissues and has demonstrated considerable diagnostic and prognostic value. (cipsm.de)
  • focuses on the development and implementation of innovative mass spectrometric methods for the more efficient and detailed characterization of proteins in relation to their biological function. (uu.nl)
  • RESULTS: The LC-MS/MS-based proteomics analysis resulted in the identification of 1201 proteins in urine, with 229, 244, and 426 being differentially expressed in HIE-1, HIE-2, and HIE-3, respectively. (bvsalud.org)
  • Finally, we apply GPS to the identification of blood-based biomarkers and identify a panel of proteins that are highly accurate in discriminating between subphenotypes of septic acute kidney injury from undepleted plasma to showcase the utility of GPS in discovery DIA-MS proteomics. (lu.se)
  • Consequently, a lot of effort is put into identifying the constituent proteins using mass spectrometric methods. (lu.se)
  • Cancer stem cell-associated proteins revealed by proteomics. (medscape.com)
  • Her work in Manchester, a national and international centre of excellence for mass spectrometry best known for the development of fast atom bombardment (FAB)[citation needed], involved the development, refinement and application of strategies for protein quantification by mass spectrometry, and gas-phase characterisation of modified peptides and glycans. (wikipedia.org)
  • However, current proteomics workflows entail several manual sample preparation steps and are challenged by the microscopic mass-limited samples generated by LCM, impacting measurement robustness, quantification and throughput. (nih.gov)
  • Label-free quantification in ion mobility-enhanced data-independent acquisition proteomics. (unimedizin-mainz.de)
  • Accurate quantification of protein motifs that are post-translationally modified is one of the most common proteomics strategies. (biorxiv.org)
  • 2021. "Resin Assisted Capture Coupled with Isobaric Tandem Mass Tag Labeling for Multiplexed Quantification of Protein Thiol Oxidation. (pnnl.gov)
  • The variability introduced by different methods prior to quantitative mass spectrometry should be considered, and accuracy and precision of MS measurements can also vary depending on the strategy used for MS quantification. (openaccesspub.org)
  • Cristian Ruse, Emily I. Chen (2014) Discovery and Quantification in Mass Spectrometry-Based Proteomics. (openaccesspub.org)
  • Quantitative proteomic methods fall into two general categories: label-based or label-free quantification. (openaccesspub.org)
  • Absolute quantification with mass spectrometry and isotope labelled internal standards has found broad applications in biomedical research. (nist.gov)
  • The method involves simple sample preparation, is compatible with low sample volumes, and involves assay validation according to high-standard guidelines created by the proteomics community. (genomebc.ca)
  • However, motif redundancy among detected peptides by mass spectrometry (MS) leads to errors and ambiguities in the analysis. (biorxiv.org)
  • The results suggest that polyclonal antibodies generated via immunization of recombinant protein fragments could be used for the enrichment of target peptides to allow for rapid mass spectrometry analysis taking advantage of a substantial reduction in sample complexity. (nih.gov)
  • During label-free relative quantitation workflows, digested peptides are separated by LC prior to MS. RP separation on Thermo Scientific low-flow systems integrates well with label-free quantitation workflows and combines seamlessly with Thermo Scientific Orbitrap mass spectrometers. (thermofisher.com)
  • Molecular measurements using capillary electrophoresis time-of-flight or orbitrap mass spectrometer platforms revealed proteomic and metabolomic differences between the X. laevis cells that correlated with phenotype. (njacs.org)
  • Capillary electrophoresis mass spectrometry expands the molecular toolbox of cell biology and neuroscience. (njacs.org)
  • In this study, proteomics and metabonomics techniques were used to analyze the tissue and plasma of DOX-induced heart failure (HF) in rats and to clarify the molecular mechanism of the harmful effects of DOX on cardiac metabolism and function in rats from a new point of view. (frontiersin.org)
  • With the help of various forms of mass spectrometry, synchrotron radiation, protein production & labelling, and bioinformatics, our facilities provide the opportunity to study protein structure and dynamics, molecular probes and drug design. (lu.se)
  • His research focus is to develop and apply proteomics based techniques to characterize the molecular mechanisms behind invasive bacterial infection. (lu.se)
  • Wei-Jun Qian is a bioanalytical chemist whose research centers primarily on the development and applications of mass spectrometry-based approaches to better quantify the dynamic changes in protein abundances and protein post-translational modifications in biological and clinical applications. (pnnl.gov)
  • In this presentation, we will discuss the development of in situ/vivo approaches by cellular and subcellular mass spectrometry that enabled our lab to determine the proteomic and metabolomic profile of identified cells in live Xenopus laevis frog embryos developing to tadpoles and neurons in mouse brain tissues. (njacs.org)
  • Mass spectrometry (MS) has been successfully used to analyze biological samples and advances of MS-based approaches have turn MS data from largely qualitative to quantitative. (openaccesspub.org)
  • These MS-based quantitative approaches using label-free, tags, or stable isotope labeling have their own strengths and limitations. (openaccesspub.org)
  • Using these quantitative approaches, one can investigate the dynamics of proteome through differential protein expression in normal biological processes and diseases. (openaccesspub.org)
  • He has an extensive track-record in quantitative proteomics, introducing metabolic stable isotope labeling in multicellular organisms such as Drosophila and C. elegans, using SILAC for studying stem cell and B cell differentiation, and stable isotope labeling by using chemical approaches, for example to follow differential pTyr phosphorylation in differentiating stem cells. (uu.nl)
  • Fourteen years of plant proteomics reflected in Proteomics: Moving from model species and 2DE-based approaches to orphan species and gel-free platforms. (mpg.de)
  • In proteomics, high throughput approaches using mass spectrometry have be- come widely used. (lu.se)
  • [ 5 ] Obviously, the study of CSCs in any given tumor type, by proteomics or other approaches, requires prior validation of their actual existence. (medscape.com)
  • While offline fractionation requires an additional liquid chromatography (LC) step using orthogonal separation modes to online LC-MS, GPF occurs completely within the mass spectrometer, making it both more reproducible and easier to perform. (nature.com)
  • In bottom-up proteomics, data-dependent acquisition (DDA) selects precursors from full-scan MS 1 mass spectrum for fragmentation, generating tandem (MS/MS or MS 2 ) mass spectra that can be matched to spectra in a database. (elifesciences.org)
  • Zeno SWATH MS hence facilitates sensitive high-throughput proteomic experiments with low sample amounts, mitigating the current bottlenecks of high-throughput proteomics. (elifesciences.org)
  • Get unparalleled insights from untargeted proteome profiles to targeted proteomics experiments with industry-leading single-cell sensitivity and accuracy. (thermofisher.com)
  • It is very difficult to measure absolute stoichiometry of protein modifications in mass spectrometry experiments," notes Dr. Chen. (genengnews.com)
  • The success of proteomics experiments, such as studies of protein function and cell signaling pathways, ultimately de- pends on how well the protein content in samples is identified and annotated. (lu.se)
  • In addition motif redundancy can affect quantitative and statistical analysis and prevent a realistic comparison of peptide numbers between datasets. (biorxiv.org)
  • Many of the published analyses of quantitative proteomics datasets use complete software packages like Progenesis (Nonlinear Dynamics), PEAKS [ 1 ] or MaxQuant [ 2 ] to name few. (biorxiv.org)
  • MassIVE.quant: a community resource of quantitative mass spectrometry-based proteomics datasets. (cdc.gov)
  • The Proteomics & Metabolomics Platform provides various modes of access, collaborative research, fee for service, instrument access, and consultancies. (monash.edu)
  • Claire Eyers (née Haydon) is a British biological mass spectrometrist who is professor of biological mass spectrometry at the University of Liverpool, where she heads up the Centre for Proteome Research. (wikipedia.org)
  • Since 2014, she has been the Professor of Biological Mass Spectrometry in the Faculty of Health and Life Sciences at the University of Liverpool[failed verification] and is currently Director of the Centre for Proteome Research. (wikipedia.org)
  • Her expertise in protein phosphorylation and biological mass spectrometry have resulted in a number of professional appointments[citation needed]. (wikipedia.org)
  • Her most cited publications[citation needed] focus on biochemical, structural, cellular and gas-phase studies of protein phosphorylation, protein kinase complexes and glycan conformation, and several highly-accessed reviews[citation needed] on the subject of ion mobility mass spectrometry for biological molecules. (wikipedia.org)
  • Mass spectrometry has transitioned from being used mostly in routine analytical applications to becoming a powerful biological method for protein quantitation. (bio-itworld.com)
  • She has also implemented new proteomics techniques to perform quantitative analysis on complex biological samples such as tissues from transgenic disease models and human tissues for biomarker discovery. (openaccesspub.org)
  • Mass spectrometry (MS), with its qualitative and quantitative capabilities, has proven to be a power tool for biological and biomedical research. (openaccesspub.org)
  • To this end database search engines were rapidly developed after the introduction of ionization techniques for biological mass spectrometry [1-5]. (lu.se)
  • The most comprehensive collection of chemical and biological modi- fications being relevant to mass spectrometry can be found in UniMod [12]. (lu.se)
  • Recently, we presented the DirectMS1 method of ultrafast proteome-wide analysis based on minute-long LC gradients and MS1-only mass spectra acquisition. (sdu.dk)
  • With DIA, mass spectrometers are tuned to systematically acquire tandem mass spectra at regular retention time and m / z intervals, freeing the method of the intensity-triggering biases introduced by data-dependent acquisition (DDA). (nature.com)
  • Sequential window acquisition of all theoretical fragment ion spectra (SWATH) is a label-free mass spectrometry quantitative technique, which can retain complete fragment ion data and has good accuracy as well as reproducibility. (ncl.edu.tw)
  • Drift time-specific collision energies enable deep-coverage data-independent acquisition proteomics. (unimedizin-mainz.de)
  • Data independent acquisition mass spectrometry (DIA-MS) has recently emerged as an important method for the identification of blood-based biomarkers. (lu.se)
  • Tandem Mass Tag quantitative proteomics was utilized to disclose the temporal protein expression sample throughout osteogenic differentiation of hPDLSCs on days. (procognia.com)
  • 2021. "Mass spectrometry-based direct detection of multiple types of protein thiol modifications in pancreatic beta cells under endoplasmic reticulum stress. (pnnl.gov)
  • 2021. "Enhancing top-down proteomics of brain tissue with FAIMS. (pnnl.gov)
  • 2021. "Assessment of TMT labeling efficiency in large-scale quantitative proteomics: the critical effect of sample pH. (pnnl.gov)
  • 2021. "Characterization of cellular oxidative stress response by stoichiometric redox proteomics. (pnnl.gov)
  • 2021. "Stoichiometric Thiol Redox Proteomics for Quantifying Cellular Responses to Perturbations. (pnnl.gov)
  • Applications of Mass Spectrometry for Clinical Diagnostics: The Influence of Turnaround Time presented by Abraham Badu-Tawiah (The Ohio State University) on October 31, 2021. (asms.org)
  • The Thermo Scientific FAIMS Pro Duo interface enhances precursor selectivity, improving qualitative and quantitative results for most peptide and protein applications while reducing time-consuming sample preparation steps. (thermofisher.com)
  • The NJ Mass Spectrometry Discussion Group is pleased to announce the return of our Fall 2023 Annual Vendor Show and Symposium, after our pandemic hiatus. (njacs.org)
  • She has published over 70 research articles, has edited two books ('Quantitative Proteomics' published by RSC Press and 'Histidine Phosphorylation: Methods and Protocols published by Springer Press ) and she currently holds two patents. (wikipedia.org)
  • The combination of immuno-based methods and mass spectrometry detection has great potential in the field of quantitative proteomics. (nih.gov)
  • Therefore, the development of methods for accurate protein quantitation is one of the most challenging areas of proteomics. (openaccesspub.org)
  • Here she developed novel mass spectrometric methods that gave important insights into the scope and dynamics of protein phosphorylation and ubiquitylation during DNA damage signalling. (imb.de)
  • By combining the proven performance of the Orbitrap mass analyzer with the speed (200 Hz) and sensitivity of the novel Astral mass analyzer, the Orbitrap Astral mass spectrometer enables faster throughput and deeper proteome coverage. (thermofisher.com)
  • In 2007, Eyers was awarded a personal Royal Society Dorothy Hodgkin Fellowship to set up her own research proteomics laboratory,[failed verification] and was promoted to Senior Lecturer in 2010[citation needed]. (wikipedia.org)
  • Then, she pursued her postdoctoral training of mass spectrometry-based proteomics technology at the Scripps Research Institute in Dr. John Yate's laboratory. (openaccesspub.org)
  • The Heck laboratory is also a pioneer in macromolecular or native mass spectrometry, which enable the analysis of intact protein assemblies by mass spectrometry. (uu.nl)
  • Cancer Immunotherapy and Mass Spectrometry presented by Donald F. Hunt (University of Virginia) on June 4, 2017. (asms.org)
  • Psatha K, Kollipara L, Voutyraki C, Divanach P, Sickmann A, Rassidakis GZ, Drakos E, Aivaliotis M. (2017) Deciphering lymphoma pathogenesis via state-of-the-art mass spectrometry-based quantitative proteomics J Chromatogr B Analyt Technol Biomed Life Sci. (forth.gr)
  • A particular focus is development of new proteomics techniques to investigate protein interactions between host and pathogen and to investigate systemic proteome changes during sepsis. (lu.se)
  • Bertis possesses world-class mass spectrometry-based quantitative proteomics technology and has successfully commercialized 'MastocheckTM' the world's first proteomics-based blood test solution for early breast cancer detection. (koreanewswire.co.kr)
  • We describe a statistical measure, Mass Distance Fingerprint, for automatic de novo detection of predominant peptide mass distances, i.e., putative protein mod- ifications. (lu.se)
  • The limitation has been a lack of sufficiently sensitive mass spectrometry technologies that can measure these biomolecules with compatibility for live development, a prerequisite for functional biology. (njacs.org)
  • In the area of basic research, he is interested in the application of quantitative proteomics to reproductive biology and steroid hormone regulation in mammalian cells. (aacc.org)
  • She has been developing and conducting multidisciplinary research projects to bridge the knowledge between biology and mass spectrometry. (openaccesspub.org)
  • Pontus Nordenfelt is Assistant Professor and principal investigator of the Quantitative Infection Biology group at Lund University. (lu.se)
  • Here, the authors review the novel insights that these studies have provided and present a comprehensive strategy for the use of proteomics in studying cancer SC biology. (medscape.com)
  • The facility also offers researchers a wealth of post-analyses services including compound identification using in-house and online mass-spectral libraries, statistical analyses of complex data, and metabolic pathway analysis to contextualize the metabolomic data, proteomics data analysis, as well as provides hands on training for graduate students and postdocs in sample collection, processing, method development, and instrument operation through graduate course (PES 8090). (clemson.edu)
  • We are proud to work together with the leading biotech company in Sweden for biomarker panel analyses in epidemiology, OLINK Proteomics AB, Uppsala, and its representatives! (lu.se)
  • Integrated quantitative proteomic and transcriptomic analysis of lung tumor and control tissue: a lung cancer showcase. (unimedizin-mainz.de)
  • In collaborations with other investigators, Dr. Chen applied discovery-based proteomics analysis to interrogate normal cellular processes such as regulatory mechanisms of iPSCs and post-translational modifications on pluripotent stem cells as well as disease processes such as heterogeneity of tumor microenvironment and neurodegeneration. (openaccesspub.org)
  • This project has addressed the growing need for MS-based proteomics tools for protein quantitation in the mouse. (genomebc.ca)
  • During MS/MS analysis, each isobaric tag is fragmented to produce a unique reporter ion mass that is used for quantitation 1 . (openaccesspub.org)
  • We microarrays and proteomics are allowing the response of thus endeavor to understand how the pathogen adapts to bacterial pathogens to different environments to be probed the host microenvironment, what selective pressures are at the whole genome level. (cdc.gov)
  • Subsequently, in 2005, she returned to the UK to take up a position with Professor Simon Gaskell as Deputy Head of the Michael Barber Centre for Mass Spectrometry at the University of Manchester[citation needed]. (wikipedia.org)
  • Johan Malmström is Professor and principal investigator of the Infection Medicine Proteomics group at the Department of Clinical Sciences. (lu.se)
  • Top-Down Proteomics and the Challenges of True Proteoform Characterization. (liverpool.ac.uk)
  • We describe the design and synthesis of a novel set of iso-baric tags for quantitative glycan profiling, which will have broad applications in carbohydrate based biomarker dis-covery, therapeutic protein characterization, and vaccine development. (nist.gov)
  • A protocol based on the simultaneous multiplex capture of more than 40 protein targets showed that approximately half of the antibodies enriched at least one functional peptide detected in the subsequent mass spectrometry analysis. (nih.gov)
  • Studying macromolecular complex stoichiometries by peptide-based mass spectrometry. (mpg.de)
  • The method's focus is to globally detect mass differences, not to assign peptide sequences or modifications to individual spectra. (lu.se)
  • The Mass Distance Fin- gerprint is calculated from high accuracy measured peptide masses. (lu.se)
  • The need to keep track of protein modifications is readily recognized by the proteomics community, and few repositories of known peptide modifications have been created. (lu.se)
  • Strategies for Quantitative Proteomics presented by M. Arthur Moseley (Duke University) on June 3, 2018. (asms.org)
  • MUAL is a mass spectrometry-based core analytical facility assisting researchers to undertake challenging analytical projects in a wide range of disciplines. (clemson.edu)
  • In this study, the research team at Bertis obtained proteomic spectra data from 156 blood samples from the ovarian cancer group (50% healthy people and 50% ovarian cancer patients) and 116 blood samples from the pancreatic cancer group (50% healthy people and 50% pancreatic cancer patients) through mass spectrometry. (koreanewswire.co.kr)
  • Here, we coupled LCM with a proteomics workflow that provides fully automated analysis of proteomes from microdissected tissues. (nih.gov)
  • In particular, PBPK models require quantitative information on the levels and activity of individual pathways involved in drug disposition across different tissues and populations (healthy vs. diseased or children vs. adults). (njacs.org)
  • 2D-DIGE coupled with tandem mass spectrometry was performed on tissues obtained from early staged OTSCC along with its paired apparently adjacent normal tissue samples (n=10). (researchsquare.com)
  • SEONGNAM--( Korea Newswire ) December 09, 2022 -- Bertis, a proteomics-based precision medicine technology development company (CEOs Dong-young Noh, Seung-man Han), announced research results of AI-based disease diagnosis model, on December 8, 2022, at Human Proteome Organization 2022 (HUPO 2022), the world's largest academic event in the field of proteomics[1]. (koreanewswire.co.kr)
  • However, there is also a growing trend for the more configurable and extensible workflow frameworks such as the Trans-proteomics pipeline (TPP), OpenMS [ 3 ], and GalaxyP. (biorxiv.org)
  • His research utilises miniaturised bioanalytical techniques, lab-on-a-chip, where microchip based biomarker analysis and sample preparation in proteomics is in focus. (lu.se)
  • Tissue and bronchoalveolar lavage samples were evaluated 4 hours and 24 hours post-exposure for evidence of diisocyanate-protein haptenation, and a label-free quantitative proteomics strategy was employed to evaluate relative changes to protein content of the cellular fraction of the lavage fluid. (cdc.gov)
  • Two-dimensional differential gel electrophoresis (2D-DIGE) and mass spectrometry (MS) based quantitative proteomics were used to study differential protein abundance in various B cell types during B cell maturation. (lu.se)
  • Here, we used ultra-high performance liquid chromatography-tandem quadrupole time-of-flight mass spectrometry (UPLC-Q-TOF/MS) to analyze DOX-induced HF in rats, to explain the toxicological pathways of DOX to the heart, especially the combined proteomic technology, to provide more information for the study of its pathogenesis. (frontiersin.org)
  • In other scenarios, quantitative measurements derived from the MS technology can be used to associate cooperative protein expression changes with cellular responses such as cell signaling. (openaccesspub.org)
  • The Heck group has a track record in proteomics and especially in the analysis of protein post-translational modifications. (uu.nl)